diff --git a/Manifest.toml b/Manifest.toml index 249fbb2..c611a43 100644 --- a/Manifest.toml +++ b/Manifest.toml @@ -1,13 +1,19 @@ # This file is machine-generated - editing it directly is not advised -julia_version = "1.10.5" +julia_version = "1.11.1" manifest_format = "2.0" project_hash = "51627db8da7ef119d69737bf49e58bd8a58989cc" [[deps.ADTypes]] -git-tree-sha1 = "016833eb52ba2d6bea9fcb50ca295980e728ee24" +git-tree-sha1 = "72af59f5b8f09faee36b4ec48e014a79210f2f4f" uuid = "47edcb42-4c32-4615-8424-f2b9edc5f35b" -version = "0.2.7" +version = "1.11.0" +weakdeps = ["ChainRulesCore", "ConstructionBase", "EnzymeCore"] + + [deps.ADTypes.extensions] + ADTypesChainRulesCoreExt = "ChainRulesCore" + ADTypesConstructionBaseExt = "ConstructionBase" + ADTypesEnzymeCoreExt = "EnzymeCore" [[deps.AbstractFFTs]] deps = ["LinearAlgebra"] @@ -27,9 +33,9 @@ version = "0.4.5" [[deps.Accessors]] deps = ["CompositionsBase", "ConstructionBase", "InverseFunctions", "LinearAlgebra", "MacroTools", "Markdown"] -git-tree-sha1 = "b392ede862e506d451fc1616e79aa6f4c673dab8" +git-tree-sha1 = "96bed9b1b57cf750cca50c311a197e306816a1cc" uuid = "7d9f7c33-5ae7-4f3b-8dc6-eff91059b697" -version = "0.1.38" +version = "0.1.39" [deps.Accessors.extensions] AccessorsAxisKeysExt = "AxisKeys" @@ -52,9 +58,9 @@ version = "0.1.38" [[deps.Adapt]] deps = ["LinearAlgebra", "Requires"] -git-tree-sha1 = "6a55b747d1812e699320963ffde36f1ebdda4099" +git-tree-sha1 = "50c3c56a52972d78e8be9fd135bfb91c9574c140" uuid = "79e6a3ab-5dfb-504d-930d-738a2a938a0e" -version = "4.0.4" +version = "4.1.1" weakdeps = ["StaticArrays"] [deps.Adapt.extensions] @@ -73,18 +79,18 @@ version = "1.1.3" [[deps.Animations]] deps = ["Colors"] -git-tree-sha1 = "e81c509d2c8e49592413bfb0bb3b08150056c79d" +git-tree-sha1 = "e092fa223bf66a3c41f9c022bd074d916dc303e7" uuid = "27a7e980-b3e6-11e9-2bcd-0b925532e340" -version = "0.4.1" +version = "0.4.2" [[deps.ArgCheck]] -git-tree-sha1 = "a3a402a35a2f7e0b87828ccabbd5ebfbebe356b4" +git-tree-sha1 = "680b3b8759bd4c54052ada14e52355ab69e07876" uuid = "dce04be8-c92d-5529-be00-80e4d2c0e197" -version = "2.3.0" +version = "2.4.0" [[deps.ArgTools]] uuid = "0dad84c5-d112-42e6-8d28-ef12dabb789f" -version = "1.1.1" +version = "1.1.2" [[deps.ArnoldiMethod]] deps = ["LinearAlgebra", "Random", "StaticArrays"] @@ -106,15 +112,16 @@ version = "3.5.1+1" [[deps.ArrayInterface]] deps = ["Adapt", "LinearAlgebra"] -git-tree-sha1 = "3640d077b6dafd64ceb8fd5c1ec76f7ca53bcf76" +git-tree-sha1 = "d5140b60b87473df18cf4fe66382b7c3596df047" uuid = "4fba245c-0d91-5ea0-9b3e-6abc04ee57a9" -version = "7.16.0" +version = "7.17.1" [deps.ArrayInterface.extensions] ArrayInterfaceBandedMatricesExt = "BandedMatrices" ArrayInterfaceBlockBandedMatricesExt = "BlockBandedMatrices" ArrayInterfaceCUDAExt = "CUDA" ArrayInterfaceCUDSSExt = "CUDSS" + ArrayInterfaceChainRulesCoreExt = "ChainRulesCore" ArrayInterfaceChainRulesExt = "ChainRules" ArrayInterfaceGPUArraysCoreExt = "GPUArraysCore" ArrayInterfaceReverseDiffExt = "ReverseDiff" @@ -128,6 +135,7 @@ version = "7.16.0" CUDA = "052768ef-5323-5732-b1bb-66c8b64840ba" CUDSS = "45b445bb-4962-46a0-9369-b4df9d0f772e" ChainRules = "082447d4-558c-5d27-93f4-14fc19e9eca2" + ChainRulesCore = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4" GPUArraysCore = "46192b85-c4d5-4398-a991-12ede77f4527" ReverseDiff = "37e2e3b7-166d-5795-8a7a-e32c996b4267" SparseArrays = "2f01184e-e22b-5df5-ae63-d93ebab69eaf" @@ -136,9 +144,9 @@ version = "7.16.0" [[deps.ArrayLayouts]] deps = ["FillArrays", "LinearAlgebra"] -git-tree-sha1 = "0dd7edaff278e346eb0ca07a7e75c9438408a3ce" +git-tree-sha1 = "2bf6e01f453284cb61c312836b4680331ddfc44b" uuid = "4c555306-a7a7-4459-81d9-ec55ddd5c99a" -version = "1.10.3" +version = "1.11.0" weakdeps = ["SparseArrays"] [deps.ArrayLayouts.extensions] @@ -146,18 +154,29 @@ weakdeps = ["SparseArrays"] [[deps.Artifacts]] uuid = "56f22d72-fd6d-98f1-02f0-08ddc0907c33" +version = "1.11.0" [[deps.Atomix]] deps = ["UnsafeAtomics"] -git-tree-sha1 = "c06a868224ecba914baa6942988e2f2aade419be" +git-tree-sha1 = "14e254ef74e44cd6ed27fbb751d4e1f9bbf085cc" uuid = "a9b6321e-bd34-4604-b9c9-b65b8de01458" -version = "0.1.0" +version = "1.0.0" + + [deps.Atomix.extensions] + AtomixCUDAExt = "CUDA" + AtomixMetalExt = "Metal" + AtomixoneAPIExt = "oneAPI" + + [deps.Atomix.weakdeps] + CUDA = "052768ef-5323-5732-b1bb-66c8b64840ba" + Metal = "dde4c033-4e86-420c-a63e-0dd931031962" + oneAPI = "8f75cd03-7ff8-4ecb-9b8f-daf728133b1b" [[deps.Automa]] -deps = ["PrecompileTools", "TranscodingStreams"] -git-tree-sha1 = "014bc22d6c400a7703c0f5dc1fdc302440cf88be" +deps = ["PrecompileTools", "SIMD", "TranscodingStreams"] +git-tree-sha1 = "a8f503e8e1a5f583fbef15a8440c8c7e32185df2" uuid = "67c07d97-cdcb-5c2c-af73-a7f9c32a568b" -version = "1.0.4" +version = "1.1.0" [[deps.AxisAlgorithms]] deps = ["LinearAlgebra", "Random", "SparseArrays", "WoodburyMatrices"] @@ -201,6 +220,7 @@ version = "0.4.3" [[deps.Base64]] uuid = "2a0f44e3-6c83-55bd-87e4-b1978d98bd5f" +version = "1.11.0" [[deps.Baselet]] git-tree-sha1 = "aebf55e6d7795e02ca500a689d326ac979aaf89e" @@ -218,11 +238,21 @@ git-tree-sha1 = "f21cfd4950cb9f0587d5067e69405ad2acd27b87" uuid = "62783981-4cbd-42fc-bca8-16325de8dc4b" version = "0.1.6" +[[deps.BracketingNonlinearSolve]] +deps = ["CommonSolve", "ConcreteStructs", "NonlinearSolveBase", "PrecompileTools", "Reexport", "SciMLBase"] +git-tree-sha1 = "95cb19c37ea427617e9795655667712f03058d98" +uuid = "70df07ce-3d50-431d-a3e7-ca6ddb60ac1e" +version = "1.1.0" +weakdeps = ["ForwardDiff"] + + [deps.BracketingNonlinearSolve.extensions] + BracketingNonlinearSolveForwardDiffExt = "ForwardDiff" + [[deps.Bzip2_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "9e2a6b69137e6969bab0152632dcb3bc108c8bdd" +git-tree-sha1 = "8873e196c2eb87962a2048b3b8e08946535864a1" uuid = "6e34b625-4abd-537c-b88f-471c36dfa7a0" -version = "1.0.8+1" +version = "1.0.8+2" [[deps.CEnum]] git-tree-sha1 = "389ad5c84de1ae7cf0e28e381131c98ea87d54fc" @@ -249,6 +279,7 @@ version = "0.2.6" [[deps.CRC32c]] uuid = "8bf52ea8-c179-5cab-976a-9e18b702a9bc" +version = "1.11.0" [[deps.CRlibm_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] @@ -257,10 +288,10 @@ uuid = "4e9b3aee-d8a1-5a3d-ad8b-7d824db253f0" version = "1.0.1+0" [[deps.CUDA]] -deps = ["AbstractFFTs", "Adapt", "BFloat16s", "CEnum", "CUDA_Driver_jll", "CUDA_Runtime_Discovery", "CUDA_Runtime_jll", "Crayons", "DataFrames", "ExprTools", "GPUArrays", "GPUCompiler", "KernelAbstractions", "LLVM", "LLVMLoopInfo", "LazyArtifacts", "Libdl", "LinearAlgebra", "Logging", "NVTX", "Preferences", "PrettyTables", "Printf", "Random", "Random123", "RandomNumbers", "Reexport", "Requires", "SparseArrays", "StaticArrays", "Statistics"] -git-tree-sha1 = "b8c28cb78014f7ae81a652ce1524cba7667dea5c" +deps = ["AbstractFFTs", "Adapt", "BFloat16s", "CEnum", "CUDA_Driver_jll", "CUDA_Runtime_Discovery", "CUDA_Runtime_jll", "Crayons", "DataFrames", "ExprTools", "GPUArrays", "GPUCompiler", "KernelAbstractions", "LLVM", "LLVMLoopInfo", "LazyArtifacts", "Libdl", "LinearAlgebra", "Logging", "NVTX", "Preferences", "PrettyTables", "Printf", "Random", "Random123", "RandomNumbers", "Reexport", "Requires", "SparseArrays", "StaticArrays", "Statistics", "demumble_jll"] +git-tree-sha1 = "e0725a467822697171af4dae15cec10b4fc19053" uuid = "052768ef-5323-5732-b1bb-66c8b64840ba" -version = "5.3.5" +version = "5.5.2" weakdeps = ["ChainRulesCore", "EnzymeCore", "SpecialFunctions"] [deps.CUDA.extensions] @@ -269,34 +300,34 @@ weakdeps = ["ChainRulesCore", "EnzymeCore", "SpecialFunctions"] SpecialFunctionsExt = "SpecialFunctions" [[deps.CUDA_Driver_jll]] -deps = ["Artifacts", "JLLWrappers", "LazyArtifacts", "Libdl", "Pkg"] -git-tree-sha1 = "dc172b558adbf17952001e15cf0d6364e6d78c2f" +deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] +git-tree-sha1 = "14996d716a2eaaeccfc8d7bc854dd87fde720ac1" uuid = "4ee394cb-3365-5eb0-8335-949819d2adfc" -version = "0.8.1+0" +version = "0.10.4+0" [[deps.CUDA_Runtime_Discovery]] deps = ["Libdl"] -git-tree-sha1 = "38f830504358e9972d2a0c3e5d51cb865e0733df" +git-tree-sha1 = "33576c7c1b2500f8e7e6baa082e04563203b3a45" uuid = "1af6417a-86b4-443c-805f-a4643ffb695f" -version = "0.2.4" +version = "0.3.5" [[deps.CUDA_Runtime_jll]] deps = ["Artifacts", "CUDA_Driver_jll", "JLLWrappers", "LazyArtifacts", "Libdl", "TOML"] -git-tree-sha1 = "4ca7d6d92075906c2ce871ea8bba971fff20d00c" +git-tree-sha1 = "17f1536c600133f7c4113bae0a2d98dbf27c7ebc" uuid = "76a88914-d11a-5bdc-97e0-2f5a05c973a2" -version = "0.12.1+0" +version = "0.15.5+0" [[deps.CUDNN_jll]] deps = ["Artifacts", "CUDA_Runtime_jll", "JLLWrappers", "LazyArtifacts", "Libdl", "TOML"] -git-tree-sha1 = "cbf7d75f8c58b147bdf6acea2e5bc96cececa6d4" +git-tree-sha1 = "9851af16a2f357a793daa0f13634c82bc7e40419" uuid = "62b44479-cb7b-5706-934f-f13b2eb2e645" -version = "9.0.0+1" +version = "9.4.0+0" [[deps.Cairo]] deps = ["Cairo_jll", "Colors", "Glib_jll", "Graphics", "Libdl", "Pango_jll"] -git-tree-sha1 = "7b6ad8c35f4bc3bca8eb78127c8b99719506a5fb" +git-tree-sha1 = "71aa551c5c33f1a4415867fe06b7844faadb0ae9" uuid = "159f3aea-2a34-519c-b102-8c37f9878175" -version = "1.1.0" +version = "1.1.1" [[deps.CairoMakie]] deps = ["CRC32c", "Cairo", "Cairo_jll", "Colors", "FileIO", "FreeType", "GeometryBasics", "LinearAlgebra", "Makie", "PrecompileTools"] @@ -306,9 +337,14 @@ version = "0.12.9" [[deps.Cairo_jll]] deps = ["Artifacts", "Bzip2_jll", "CompilerSupportLibraries_jll", "Fontconfig_jll", "FreeType2_jll", "Glib_jll", "JLLWrappers", "LZO_jll", "Libdl", "Pixman_jll", "Xorg_libXext_jll", "Xorg_libXrender_jll", "Zlib_jll", "libpng_jll"] -git-tree-sha1 = "a2f1c8c668c8e3cb4cca4e57a8efdb09067bb3fd" +git-tree-sha1 = "009060c9a6168704143100f36ab08f06c2af4642" uuid = "83423d85-b0ee-5818-9007-b63ccbeb887a" -version = "1.18.0+2" +version = "1.18.2+1" + +[[deps.Cassette]] +git-tree-sha1 = "f8764df8d9d2aec2812f009a1ac39e46c33354b8" +uuid = "7057c7e9-c182-5462-911a-8362d720325c" +version = "0.3.14" [[deps.CatIndices]] deps = ["CustomUnitRanges", "OffsetArrays"] @@ -323,15 +359,15 @@ version = "0.6.0" [[deps.ChainRules]] deps = ["Adapt", "ChainRulesCore", "Compat", "Distributed", "GPUArraysCore", "IrrationalConstants", "LinearAlgebra", "Random", "RealDot", "SparseArrays", "SparseInverseSubset", "Statistics", "StructArrays", "SuiteSparse"] -git-tree-sha1 = "83806b5196e1e9827db0429a7579824c8b0e03ce" +git-tree-sha1 = "bcffdcaed50d3453673b852f3522404a94b50fad" uuid = "082447d4-558c-5d27-93f4-14fc19e9eca2" -version = "1.70.0" +version = "1.72.1" [[deps.ChainRulesCore]] deps = ["Compat", "LinearAlgebra"] -git-tree-sha1 = "71acdbf594aab5bbb2cec89b208c41b4c411e49f" +git-tree-sha1 = "3e4b134270b372f2ed4d4d0e936aabaefc1802bc" uuid = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4" -version = "1.24.0" +version = "1.25.0" weakdeps = ["SparseArrays"] [deps.ChainRulesCore.extensions] @@ -396,6 +432,11 @@ git-tree-sha1 = "cda2cfaebb4be89c9084adaca7dd7333369715c5" uuid = "bbf7d656-a473-5ed7-a52c-81e309532950" version = "0.3.1" +[[deps.CommonWorldInvalidations]] +git-tree-sha1 = "ae52d1c52048455e85a387fbee9be553ec2b68d0" +uuid = "f70d9fcc-98c5-4d4a-abd7-e4cdeebd8ca8" +version = "1.0.0" + [[deps.Compat]] deps = ["TOML", "UUIDs"] git-tree-sha1 = "8ae8d32e09f0dcf42a36b90d4e17f5dd2e4c4215" @@ -443,9 +484,9 @@ version = "2.4.2" [[deps.CondaPkg]] deps = ["JSON3", "Markdown", "MicroMamba", "Pidfile", "Pkg", "Preferences", "TOML"] -git-tree-sha1 = "e81c4263c7ef4eca4d645ef612814d72e9255b41" +git-tree-sha1 = "905244d4b8d2319783a39df4e7c7eb9e9bb022d8" uuid = "992eb4ea-22a4-4c89-a5bb-47a3300528ab" -version = "0.2.22" +version = "0.2.24" [[deps.Configurations]] deps = ["ExproniconLite", "OrderedCollections", "TOML"] @@ -503,10 +544,10 @@ uuid = "9a962f9c-6df0-11e9-0e5d-c546b8b5ee8a" version = "1.16.0" [[deps.DataFrames]] -deps = ["Compat", "DataAPI", "DataStructures", "Future", "InlineStrings", "InvertedIndices", "IteratorInterfaceExtensions", "LinearAlgebra", "Markdown", "Missings", "PooledArrays", "PrecompileTools", "PrettyTables", "Printf", "REPL", "Random", "Reexport", "SentinelArrays", "SortingAlgorithms", "Statistics", "TableTraits", "Tables", "Unicode"] -git-tree-sha1 = "04c738083f29f86e62c8afc341f0967d8717bdb8" +deps = ["Compat", "DataAPI", "DataStructures", "Future", "InlineStrings", "InvertedIndices", "IteratorInterfaceExtensions", "LinearAlgebra", "Markdown", "Missings", "PooledArrays", "PrecompileTools", "PrettyTables", "Printf", "Random", "Reexport", "SentinelArrays", "SortingAlgorithms", "Statistics", "TableTraits", "Tables", "Unicode"] +git-tree-sha1 = "fb61b4812c49343d7ef0b533ba982c46021938a6" uuid = "a93c6f00-e57d-5684-b7b6-d8193f3e46c0" -version = "1.6.1" +version = "1.7.0" [[deps.DataStructures]] deps = ["Compat", "InteractiveUtils", "OrderedCollections"] @@ -522,6 +563,7 @@ version = "1.0.0" [[deps.Dates]] deps = ["Printf"] uuid = "ade2ca70-3891-5945-98fb-dc099432e06a" +version = "1.11.0" [[deps.Dbus_jll]] deps = ["Artifacts", "Expat_jll", "JLLWrappers", "Libdl"] @@ -542,9 +584,9 @@ version = "0.1.2" [[deps.DelaunayTriangulation]] deps = ["AdaptivePredicates", "EnumX", "ExactPredicates", "Random"] -git-tree-sha1 = "94eb20e6621600f4315813b1d1fc9b8a5a6a34db" +git-tree-sha1 = "e1371a23fd9816080c828d0ce04373857fe73d33" uuid = "927a84f5-c5f4-47a5-9785-b46e178433df" -version = "1.4.0" +version = "1.6.3" [[deps.DelimitedFiles]] deps = ["Mmap"] @@ -553,12 +595,13 @@ uuid = "8bb1440f-4735-579b-a4ab-409b98df4dab" version = "1.9.1" [[deps.DiffEqBase]] -deps = ["ArrayInterface", "ConcreteStructs", "DataStructures", "DocStringExtensions", "EnumX", "EnzymeCore", "FastBroadcast", "FastClosures", "ForwardDiff", "FunctionWrappers", "FunctionWrappersWrappers", "LinearAlgebra", "Logging", "Markdown", "MuladdMacro", "Parameters", "PreallocationTools", "PrecompileTools", "Printf", "RecursiveArrayTools", "Reexport", "SciMLBase", "SciMLOperators", "Setfield", "SparseArrays", "Static", "StaticArraysCore", "Statistics", "Tricks", "TruncatedStacktraces"] -git-tree-sha1 = "531c53fd0405716712a8b4960216c3b7b5ec89b9" +deps = ["ArrayInterface", "ConcreteStructs", "DataStructures", "DocStringExtensions", "EnumX", "EnzymeCore", "FastBroadcast", "FastClosures", "FastPower", "ForwardDiff", "FunctionWrappers", "FunctionWrappersWrappers", "LinearAlgebra", "Logging", "Markdown", "MuladdMacro", "Parameters", "PreallocationTools", "PrecompileTools", "Printf", "RecursiveArrayTools", "Reexport", "SciMLBase", "SciMLOperators", "SciMLStructures", "Setfield", "Static", "StaticArraysCore", "Statistics", "TruncatedStacktraces"] +git-tree-sha1 = "b7dbeaa770bad0980ddddf606de814cff2acb3bc" uuid = "2b5f629d-d688-5b77-993f-72d75c75574e" -version = "6.149.1" +version = "6.160.0" [deps.DiffEqBase.extensions] + DiffEqBaseCUDAExt = "CUDA" DiffEqBaseChainRulesCoreExt = "ChainRulesCore" DiffEqBaseDistributionsExt = "Distributions" DiffEqBaseEnzymeExt = ["ChainRulesCore", "Enzyme"] @@ -567,10 +610,12 @@ version = "6.149.1" DiffEqBaseMeasurementsExt = "Measurements" DiffEqBaseMonteCarloMeasurementsExt = "MonteCarloMeasurements" DiffEqBaseReverseDiffExt = "ReverseDiff" + DiffEqBaseSparseArraysExt = "SparseArrays" DiffEqBaseTrackerExt = "Tracker" DiffEqBaseUnitfulExt = "Unitful" [deps.DiffEqBase.weakdeps] + CUDA = "052768ef-5323-5732-b1bb-66c8b64840ba" ChainRulesCore = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4" Distributions = "31c24e10-a181-5473-b8eb-7969acd0382f" Enzyme = "7da242da-08ed-463a-9acd-ee780be4f1d9" @@ -579,6 +624,7 @@ version = "6.149.1" Measurements = "eff96d63-e80a-5855-80a2-b1b0885c5ab7" MonteCarloMeasurements = "0987c9cc-fe09-11e8-30f0-b96dd679fdca" ReverseDiff = "37e2e3b7-166d-5795-8a7a-e32c996b4267" + SparseArrays = "2f01184e-e22b-5df5-ae63-d93ebab69eaf" Tracker = "9f7883ad-71c0-57eb-9f7f-b5c9e6d3789c" Unitful = "1986cc42-f94f-5a68-af5c-568840ba703d" @@ -594,11 +640,66 @@ git-tree-sha1 = "23163d55f885173722d1e4cf0f6110cdbaf7e272" uuid = "b552c78f-8df3-52c6-915a-8e097449b14b" version = "1.15.1" +[[deps.DifferentiationInterface]] +deps = ["ADTypes", "LinearAlgebra"] +git-tree-sha1 = "6a10acc94d4246b0e542eef3d850c1ad200e8958" +uuid = "a0c0ee7d-e4b9-4e03-894e-1c5f64a51d63" +version = "0.6.26" + + [deps.DifferentiationInterface.extensions] + DifferentiationInterfaceChainRulesCoreExt = "ChainRulesCore" + DifferentiationInterfaceDiffractorExt = "Diffractor" + DifferentiationInterfaceEnzymeExt = ["EnzymeCore", "Enzyme"] + DifferentiationInterfaceFastDifferentiationExt = "FastDifferentiation" + DifferentiationInterfaceFiniteDiffExt = "FiniteDiff" + DifferentiationInterfaceFiniteDifferencesExt = "FiniteDifferences" + DifferentiationInterfaceForwardDiffExt = ["ForwardDiff", "DiffResults"] + DifferentiationInterfaceMooncakeExt = "Mooncake" + DifferentiationInterfacePolyesterForwardDiffExt = "PolyesterForwardDiff" + DifferentiationInterfaceReverseDiffExt = ["ReverseDiff", "DiffResults"] + DifferentiationInterfaceSparseArraysExt = "SparseArrays" + DifferentiationInterfaceSparseMatrixColoringsExt = "SparseMatrixColorings" + DifferentiationInterfaceStaticArraysExt = "StaticArrays" + DifferentiationInterfaceSymbolicsExt = "Symbolics" + DifferentiationInterfaceTrackerExt = "Tracker" + DifferentiationInterfaceZygoteExt = ["Zygote", "ForwardDiff"] + + [deps.DifferentiationInterface.weakdeps] + ChainRulesCore = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4" + DiffResults = "163ba53b-c6d8-5494-b064-1a9d43ac40c5" + Diffractor = "9f5e2b26-1114-432f-b630-d3fe2085c51c" + Enzyme = "7da242da-08ed-463a-9acd-ee780be4f1d9" + EnzymeCore = "f151be2c-9106-41f4-ab19-57ee4f262869" + FastDifferentiation = "eb9bf01b-bf85-4b60-bf87-ee5de06c00be" + FiniteDiff = "6a86dc24-6348-571c-b903-95158fe2bd41" + FiniteDifferences = "26cc04aa-876d-5657-8c51-4c34ba976000" + ForwardDiff = "f6369f11-7733-5829-9624-2563aa707210" + Mooncake = "da2b9cff-9c12-43a0-ae48-6db2b0edb7d6" + PolyesterForwardDiff = "98d1487c-24ca-40b6-b7ab-df2af84e126b" + ReverseDiff = "37e2e3b7-166d-5795-8a7a-e32c996b4267" + SparseArrays = "2f01184e-e22b-5df5-ae63-d93ebab69eaf" + SparseMatrixColorings = "0a514795-09f3-496d-8182-132a7b665d35" + StaticArrays = "90137ffa-7385-5640-81b9-e52037218182" + Symbolics = "0c5d862f-8b57-4792-8d23-62f2024744c7" + Tracker = "9f7883ad-71c0-57eb-9f7f-b5c9e6d3789c" + Zygote = "e88e6eb3-aa80-5325-afca-941959d7151f" + +[[deps.DispatchDoctor]] +deps = ["MacroTools", "Preferences"] +git-tree-sha1 = "453df2ce2aef7de59c69a56d31dcd2ec3384dd77" +uuid = "8d63f2c5-f18a-4cf2-ba9d-b3f60fc568c8" +version = "0.4.17" +weakdeps = ["ChainRulesCore", "EnzymeCore"] + + [deps.DispatchDoctor.extensions] + DispatchDoctorChainRulesCoreExt = "ChainRulesCore" + DispatchDoctorEnzymeCoreExt = "EnzymeCore" + [[deps.Distances]] deps = ["LinearAlgebra", "Statistics", "StatsAPI"] -git-tree-sha1 = "66c4c81f259586e8f002eacebc177e1fb06363b0" +git-tree-sha1 = "c7e3a542b999843086e2f29dac96a618c105be1d" uuid = "b4f34e82-e78d-54a5-968a-f98e89d6e8f7" -version = "0.10.11" +version = "0.10.12" weakdeps = ["ChainRulesCore", "SparseArrays"] [deps.Distances.extensions] @@ -608,12 +709,13 @@ weakdeps = ["ChainRulesCore", "SparseArrays"] [[deps.Distributed]] deps = ["Random", "Serialization", "Sockets"] uuid = "8ba89e20-285c-5b6f-9357-94700520ee1b" +version = "1.11.0" [[deps.Distributions]] deps = ["AliasTables", "FillArrays", "LinearAlgebra", "PDMats", "Printf", "QuadGK", "Random", "SpecialFunctions", "Statistics", "StatsAPI", "StatsBase", "StatsFuns"] -git-tree-sha1 = "22c595ca4146c07b16bcf9c8bea86f731f7109d2" +git-tree-sha1 = "3101c32aab536e7a27b1763c0797dba151b899ad" uuid = "31c24e10-a181-5473-b8eb-7969acd0382f" -version = "0.25.108" +version = "0.25.113" [deps.Distributions.extensions] DistributionsChainRulesCoreExt = "ChainRulesCore" @@ -633,9 +735,13 @@ version = "0.9.3" [[deps.DomainSets]] deps = ["CompositeTypes", "IntervalSets", "LinearAlgebra", "Random", "StaticArrays"] -git-tree-sha1 = "a0c11553b6c58bfc0283d8279dd3798150b77ac5" +git-tree-sha1 = "490392af2c7d63183bfa2c8aaa6ab981c5ba7561" uuid = "5b8099bc-c8ec-5219-889f-1d9e522a28bf" -version = "0.7.12" +version = "0.7.14" +weakdeps = ["Makie"] + + [deps.DomainSets.extensions] + DomainSetsMakieExt = "Makie" [[deps.Downloads]] deps = ["ArgTools", "FileWatching", "LibCURL", "NetworkOptions"] @@ -643,10 +749,10 @@ uuid = "f43a241f-c20a-4ad4-852c-f6b1247861c6" version = "1.6.0" [[deps.DynamicExpressions]] -deps = ["Compat", "MacroTools", "PackageExtensionCompat", "PrecompileTools", "Random", "Reexport", "TOML"] -git-tree-sha1 = "3976ad6cf7fd2b80bee8662dc3dd06f8a67c3fbd" +deps = ["ChainRulesCore", "DispatchDoctor", "Interfaces", "MacroTools", "PrecompileTools", "Random", "Reexport", "TOML"] +git-tree-sha1 = "f6c109e52ef94b0d74fb6100f0f4c913b3ff7738" uuid = "a40a106e-89c9-4ca8-8020-a735e8728b6b" -version = "0.16.0" +version = "1.5.1" [deps.DynamicExpressions.extensions] DynamicExpressionsBumperExt = "Bumper" @@ -663,10 +769,10 @@ version = "0.16.0" Zygote = "e88e6eb3-aa80-5325-afca-941959d7151f" [[deps.DynamicQuantities]] -deps = ["Compat", "PackageExtensionCompat", "Tricks"] -git-tree-sha1 = "412b25c7d99ec6b06967d315c7b29bb8e484f092" +deps = ["DispatchDoctor", "TestItems", "Tricks"] +git-tree-sha1 = "4923007a8e500f13be4c0119554776993c055ece" uuid = "06fc5a27-2a28-4c7c-a15d-362465fb6821" -version = "0.13.2" +version = "1.4.0" [deps.DynamicQuantities.extensions] DynamicQuantitiesLinearAlgebraExt = "LinearAlgebra" @@ -692,9 +798,9 @@ uuid = "4e289a0a-7415-4d19-859d-a7e5c4648b56" version = "1.0.4" [[deps.EnzymeCore]] -git-tree-sha1 = "8f205a601760f4798a10f138c3940f0451d95188" +git-tree-sha1 = "0cdb7af5c39e92d78a0ee8d0a447d32f7593137e" uuid = "f151be2c-9106-41f4-ab19-57ee4f262869" -version = "0.7.8" +version = "0.8.8" weakdeps = ["Adapt"] [deps.EnzymeCore.extensions] @@ -702,9 +808,9 @@ weakdeps = ["Adapt"] [[deps.EpollShim_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "8e9441ee83492030ace98f9789a654a6d0b1f643" +git-tree-sha1 = "8a4be429317c42cfae6a7fc03c31bad1970c310d" uuid = "2702e6a9-849d-5ed8-8c21-79e8b8f9ee43" -version = "0.0.20230411+0" +version = "0.0.20230411+1" [[deps.ExactPredicates]] deps = ["IntervalArithmetic", "Random", "StaticArrays"] @@ -714,15 +820,15 @@ version = "2.2.8" [[deps.ExceptionUnwrapping]] deps = ["Test"] -git-tree-sha1 = "dcb08a0d93ec0b1cdc4af184b26b591e9695423a" +git-tree-sha1 = "d36f682e590a83d63d1c7dbd287573764682d12a" uuid = "460bff9d-24e4-43bc-9d9f-a8973cb893f4" -version = "0.1.10" +version = "0.1.11" [[deps.Expat_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "1c6317308b9dc757616f0b5cb379db10494443a7" +git-tree-sha1 = "e51db81749b0777b2147fbe7b783ee79045b8e99" uuid = "2e619515-83b5-522b-bb60-26c02a35a201" -version = "2.6.2+0" +version = "2.6.4+1" [[deps.ExprTools]] git-tree-sha1 = "27415f162e6028e81c72b82ef756bf321213b6ec" @@ -730,9 +836,9 @@ uuid = "e2ba6199-217a-4e67-a87a-7c52f15ade04" version = "0.1.10" [[deps.ExpressionExplorer]] -git-tree-sha1 = "0889fdf7ac69b67b65f54b763941967e0a08b7b3" +git-tree-sha1 = "7005f1493c18afb2fa3bdf06e02b16a9fde5d16d" uuid = "21656369-7473-754a-2065-74616d696c43" -version = "1.0.4" +version = "1.1.0" [[deps.Expronicon]] deps = ["MLStyle", "Pkg", "TOML"] @@ -752,9 +858,9 @@ version = "0.1.4" [[deps.FFMPEG]] deps = ["FFMPEG_jll"] -git-tree-sha1 = "b57e3acbe22f8484b4b5ff66a7499717fe1a9cc8" +git-tree-sha1 = "53ebe7511fa11d33bec688a9178fac4e49eeee00" uuid = "c87230d0-a227-11e9-1b43-d7ebe4e7570a" -version = "0.4.1" +version = "0.4.2" [[deps.FFMPEG_jll]] deps = ["Artifacts", "Bzip2_jll", "FreeType2_jll", "FriBidi_jll", "JLLWrappers", "LAME_jll", "Libdl", "Ogg_jll", "OpenSSL_jll", "Opus_jll", "PCRE2_jll", "Zlib_jll", "libaom_jll", "libass_jll", "libfdk_aac_jll", "libvorbis_jll", "x264_jll", "x265_jll"] @@ -776,15 +882,15 @@ version = "1.8.0" [[deps.FFTW_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "c6033cc3892d0ef5bb9cd29b7f2f0331ea5184ea" +git-tree-sha1 = "4d81ed14783ec49ce9f2e168208a12ce1815aa25" uuid = "f5851436-0d7a-5f13-b9de-f02708fd171a" -version = "3.3.10+0" +version = "3.3.10+1" [[deps.FITSIO]] deps = ["CFITSIO", "Printf", "Reexport", "Tables"] -git-tree-sha1 = "a8924c203d66d4c5d72980572c6810213422a59d" +git-tree-sha1 = "8b68d078e8ec3660b7e95528f1a888c5222d2fb4" uuid = "525bcba6-941b-5504-bd06-fd0dc1a4d2eb" -version = "0.17.1" +version = "0.17.4" [[deps.FLoops]] deps = ["BangBang", "Compat", "FLoopsBase", "InitialValues", "JuliaVariables", "MLStyle", "Serialization", "Setfield", "Transducers"] @@ -800,9 +906,9 @@ version = "0.1.1" [[deps.FastBroadcast]] deps = ["ArrayInterface", "LinearAlgebra", "Polyester", "Static", "StaticArrayInterface", "StrideArraysCore"] -git-tree-sha1 = "a6e756a880fc419c8b41592010aebe6a5ce09136" +git-tree-sha1 = "ab1b34570bcdf272899062e1a56285a53ecaae08" uuid = "7034ab61-46d4-4ed7-9d0f-46aef9175898" -version = "0.2.8" +version = "0.3.5" [[deps.FastClosures]] git-tree-sha1 = "acebe244d53ee1b461970f8910c235b259e772ef" @@ -815,11 +921,36 @@ git-tree-sha1 = "cbf5edddb61a43669710cbc2241bc08b36d9e660" uuid = "29a986be-02c6-4525-aec4-84b980013641" version = "2.0.4" +[[deps.FastPower]] +git-tree-sha1 = "58c3431137131577a7c379d00fea00be524338fb" +uuid = "a4df4552-cc26-4903-aec0-212e50a0e84b" +version = "1.1.1" + + [deps.FastPower.extensions] + FastPowerEnzymeExt = "Enzyme" + FastPowerForwardDiffExt = "ForwardDiff" + FastPowerMeasurementsExt = "Measurements" + FastPowerMonteCarloMeasurementsExt = "MonteCarloMeasurements" + FastPowerReverseDiffExt = "ReverseDiff" + FastPowerTrackerExt = "Tracker" + + [deps.FastPower.weakdeps] + Enzyme = "7da242da-08ed-463a-9acd-ee780be4f1d9" + ForwardDiff = "f6369f11-7733-5829-9624-2563aa707210" + Measurements = "eff96d63-e80a-5855-80a2-b1b0885c5ab7" + MonteCarloMeasurements = "0987c9cc-fe09-11e8-30f0-b96dd679fdca" + ReverseDiff = "37e2e3b7-166d-5795-8a7a-e32c996b4267" + Tracker = "9f7883ad-71c0-57eb-9f7f-b5c9e6d3789c" + [[deps.FileIO]] deps = ["Pkg", "Requires", "UUIDs"] -git-tree-sha1 = "82d8afa92ecf4b52d78d869f038ebfb881267322" +git-tree-sha1 = "2dd20384bf8c6d411b5c7370865b1e9b26cb2ea3" uuid = "5789e2e9-d7fb-5bc7-8068-2c6fae9b9549" -version = "1.16.3" +version = "1.16.6" +weakdeps = ["HTTP"] + + [deps.FileIO.extensions] + HTTPExt = "HTTP" [[deps.FilePaths]] deps = ["FilePathsBase", "MacroTools", "Reexport", "Requires"] @@ -840,6 +971,7 @@ weakdeps = ["Mmap", "Test"] [[deps.FileWatching]] uuid = "7b1f6079-737a-58dc-b8bc-7a2ca5c1b5ee" +version = "1.11.0" [[deps.FillArrays]] deps = ["LinearAlgebra"] @@ -854,19 +986,21 @@ weakdeps = ["PDMats", "SparseArrays", "Statistics"] FillArraysStatisticsExt = "Statistics" [[deps.FiniteDiff]] -deps = ["ArrayInterface", "LinearAlgebra", "Setfield", "SparseArrays"] -git-tree-sha1 = "f9219347ebf700e77ca1d48ef84e4a82a6701882" +deps = ["ArrayInterface", "LinearAlgebra", "Setfield"] +git-tree-sha1 = "84e3a47db33be7248daa6274b287507dd6ff84e8" uuid = "6a86dc24-6348-571c-b903-95158fe2bd41" -version = "2.24.0" +version = "2.26.2" [deps.FiniteDiff.extensions] FiniteDiffBandedMatricesExt = "BandedMatrices" FiniteDiffBlockBandedMatricesExt = "BlockBandedMatrices" + FiniteDiffSparseArraysExt = "SparseArrays" FiniteDiffStaticArraysExt = "StaticArrays" [deps.FiniteDiff.weakdeps] BandedMatrices = "aae01518-5342-5314-be14-df237901396f" BlockBandedMatrices = "ffab5731-97b5-5995-9138-79e8c1846df0" + SparseArrays = "2f01184e-e22b-5df5-ae63-d93ebab69eaf" StaticArrays = "90137ffa-7385-5640-81b9-e52037218182" [[deps.FixedPointNumbers]] @@ -876,21 +1010,25 @@ uuid = "53c48c17-4a7d-5ca2-90c5-79b7896eea93" version = "0.8.5" [[deps.Flux]] -deps = ["Adapt", "ChainRulesCore", "Compat", "Functors", "LinearAlgebra", "MLUtils", "MacroTools", "NNlib", "OneHotArrays", "Optimisers", "Preferences", "ProgressLogging", "Random", "Reexport", "SparseArrays", "SpecialFunctions", "Statistics", "Zygote"] -git-tree-sha1 = "a5475163b611812d073171583982c42ea48d22b0" +deps = ["Adapt", "ChainRulesCore", "Compat", "EnzymeCore", "Functors", "LinearAlgebra", "MLDataDevices", "MLUtils", "MacroTools", "NNlib", "OneHotArrays", "Optimisers", "Preferences", "ProgressLogging", "Random", "Reexport", "Setfield", "SparseArrays", "SpecialFunctions", "Statistics", "Zygote"] +git-tree-sha1 = "654986925409921cf24e6432ef4fcbefc816e3cf" uuid = "587475ba-b771-5e3f-ad9e-33799f191a9c" -version = "0.14.15" +version = "0.15.0" [deps.Flux.extensions] FluxAMDGPUExt = "AMDGPU" FluxCUDAExt = "CUDA" FluxCUDAcuDNNExt = ["CUDA", "cuDNN"] - FluxMetalExt = "Metal" + FluxEnzymeExt = "Enzyme" + FluxMPIExt = "MPI" + FluxMPINCCLExt = ["CUDA", "MPI", "NCCL"] [deps.Flux.weakdeps] AMDGPU = "21141c5a-9bdb-4563-92ae-f87d6854732e" CUDA = "052768ef-5323-5732-b1bb-66c8b64840ba" - Metal = "dde4c033-4e86-420c-a63e-0dd931031962" + Enzyme = "7da242da-08ed-463a-9acd-ee780be4f1d9" + MPI = "da04e1cc-30fd-572f-bb4f-1f8673147195" + NCCL = "3fe64909-d7a1-4096-9b7d-7a0f12cf0f6b" cuDNN = "02a925ec-e4fe-4b08-9a7e-0d78e3d38ccd" [[deps.Fontconfig_jll]] @@ -906,9 +1044,9 @@ version = "1.3.7" [[deps.ForwardDiff]] deps = ["CommonSubexpressions", "DiffResults", "DiffRules", "LinearAlgebra", "LogExpFunctions", "NaNMath", "Preferences", "Printf", "Random", "SpecialFunctions"] -git-tree-sha1 = "cf0fe81336da9fb90944683b8c41984b08793dad" +git-tree-sha1 = "a2df1b776752e3f344e5116c06d75a10436ab853" uuid = "f6369f11-7733-5829-9624-2563aa707210" -version = "0.10.36" +version = "0.10.38" weakdeps = ["StaticArrays"] [deps.ForwardDiff.extensions] @@ -922,15 +1060,15 @@ version = "4.1.1" [[deps.FreeType2_jll]] deps = ["Artifacts", "Bzip2_jll", "JLLWrappers", "Libdl", "Zlib_jll"] -git-tree-sha1 = "5c1d8ae0efc6c2e7b1fc502cbe25def8f661b7bc" +git-tree-sha1 = "786e968a8d2fb167f2e4880baba62e0e26bd8e4e" uuid = "d7e528f0-a631-5988-bf34-fe36492bcfd7" -version = "2.13.2+0" +version = "2.13.3+1" [[deps.FreeTypeAbstraction]] deps = ["ColorVectorSpace", "Colors", "FreeType", "GeometryBasics"] -git-tree-sha1 = "2493cdfd0740015955a8e46de4ef28f49460d8bc" +git-tree-sha1 = "d52e255138ac21be31fa633200b65e4e71d26802" uuid = "663a7486-cb36-511b-a19d-713bb74d65c9" -version = "0.10.3" +version = "0.10.6" [[deps.FriBidi_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] @@ -938,6 +1076,12 @@ git-tree-sha1 = "1ed150b39aebcc805c26b93a8d0122c940f64ce2" uuid = "559328eb-81f9-559d-9380-de523a88c83c" version = "1.0.14+0" +[[deps.FunctionProperties]] +deps = ["Cassette", "DiffRules"] +git-tree-sha1 = "bf7c740307eb0ee80e05d8aafbd0c5a901578398" +uuid = "f62d2435-5019-4c03-9749-2d4c77af0cbc" +version = "0.1.2" + [[deps.FunctionWrappers]] git-tree-sha1 = "d62485945ce5ae9c0c48f124a84998d755bae00e" uuid = "069b7b12-0de2-55c6-9aab-29f3d0a68a2e" @@ -950,20 +1094,21 @@ uuid = "77dc65aa-8811-40c2-897b-53d922fa7daf" version = "0.1.3" [[deps.Functors]] -deps = ["LinearAlgebra"] -git-tree-sha1 = "64d8e93700c7a3f28f717d265382d52fac9fa1c1" +deps = ["Compat", "ConstructionBase", "LinearAlgebra", "Random"] +git-tree-sha1 = "60a0339f28a233601cb74468032b5c302d5067de" uuid = "d9f16b24-f501-4c13-a1f2-28368ffc5196" -version = "0.4.12" +version = "0.5.2" [[deps.Future]] deps = ["Random"] uuid = "9fa8497b-333b-5362-9e8d-4d0656e87820" +version = "1.11.0" [[deps.FuzzyCompletions]] deps = ["REPL"] -git-tree-sha1 = "40ec72c57559a4473961bbcd12c96bcd4c2aaab4" +git-tree-sha1 = "be713866335f48cfb1285bff2d0cbb8304c1701c" uuid = "fb4132e2-a121-4a70-b8a1-d5b831dcdcc2" -version = "0.5.4" +version = "0.5.5" [[deps.GLFW_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Libglvnd_jll", "Xorg_libXcursor_jll", "Xorg_libXi_jll", "Xorg_libXinerama_jll", "Xorg_libXrandr_jll", "libdecor_jll", "xkbcommon_jll"] @@ -984,22 +1129,22 @@ uuid = "46192b85-c4d5-4398-a991-12ede77f4527" version = "0.1.6" [[deps.GPUCompiler]] -deps = ["ExprTools", "InteractiveUtils", "LLVM", "Libdl", "Logging", "Scratch", "TimerOutputs", "UUIDs"] -git-tree-sha1 = "1600477fba37c9fc067b9be21f5e8101f24a8865" +deps = ["ExprTools", "InteractiveUtils", "LLVM", "Libdl", "Logging", "PrecompileTools", "Preferences", "Scratch", "Serialization", "TOML", "TimerOutputs", "UUIDs"] +git-tree-sha1 = "1d6f290a5eb1201cd63574fbc4440c788d5cb38f" uuid = "61eb1bfa-7361-4325-ad38-22787b887f55" -version = "0.26.4" +version = "0.27.8" [[deps.GR]] -deps = ["Artifacts", "Base64", "DelimitedFiles", "Downloads", "GR_jll", "HTTP", "JSON", "Libdl", "LinearAlgebra", "Pkg", "Preferences", "Printf", "Random", "Serialization", "Sockets", "TOML", "Tar", "Test", "UUIDs", "p7zip_jll"] -git-tree-sha1 = "3437ade7073682993e092ca570ad68a2aba26983" +deps = ["Artifacts", "Base64", "DelimitedFiles", "Downloads", "GR_jll", "HTTP", "JSON", "Libdl", "LinearAlgebra", "Preferences", "Printf", "Qt6Wayland_jll", "Random", "Serialization", "Sockets", "TOML", "Tar", "Test", "p7zip_jll"] +git-tree-sha1 = "52adc6828958ea8a0cf923d53aa10773dbca7d5f" uuid = "28b8d3ca-fb5f-59d9-8090-bfdbd6d07a71" -version = "0.73.3" +version = "0.73.9" [[deps.GR_jll]] deps = ["Artifacts", "Bzip2_jll", "Cairo_jll", "FFMPEG_jll", "Fontconfig_jll", "FreeType2_jll", "GLFW_jll", "JLLWrappers", "JpegTurbo_jll", "Libdl", "Libtiff_jll", "Pixman_jll", "Qt6Base_jll", "Zlib_jll", "libpng_jll"] -git-tree-sha1 = "a96d5c713e6aa28c242b0d25c1347e258d6541ab" +git-tree-sha1 = "4e9e2966af45b06f24fd952285841428f1d6e858" uuid = "d2c73de3-f751-5644-a686-071e5b155ba9" -version = "0.73.3+0" +version = "0.73.9+0" [[deps.Gaston]] deps = ["ColorSchemes", "DelimitedFiles", "PrecompileTools", "Random"] @@ -1014,9 +1159,9 @@ version = "0.4.2" [[deps.GeoInterface]] deps = ["Extents", "GeoFormatTypes"] -git-tree-sha1 = "5921fc0704e40c024571eca551800c699f86ceb4" +git-tree-sha1 = "826b4fd69438d9ce4d2b19de6bc2f970f45f0f88" uuid = "cf35fbd7-0cd7-5166-be24-54bfbe79505f" -version = "1.3.6" +version = "1.3.8" [[deps.GeometryBasics]] deps = ["EarCut_jll", "Extents", "GeoInterface", "IterTools", "LinearAlgebra", "StaticArrays", "StructArrays", "Tables"] @@ -1038,33 +1183,33 @@ version = "9.55.0+4" [[deps.Glib_jll]] deps = ["Artifacts", "Gettext_jll", "JLLWrappers", "Libdl", "Libffi_jll", "Libiconv_jll", "Libmount_jll", "PCRE2_jll", "Zlib_jll"] -git-tree-sha1 = "7c82e6a6cd34e9d935e9aa4051b66c6ff3af59ba" +git-tree-sha1 = "48b5d4c75b2c9078ead62e345966fa51a25c05ad" uuid = "7746bdde-850d-59dc-9ae8-88ece973131d" -version = "2.80.2+0" +version = "2.82.2+1" [[deps.Graphics]] deps = ["Colors", "LinearAlgebra", "NaNMath"] -git-tree-sha1 = "d61890399bc535850c4bf08e4e0d3a7ad0f21cbd" +git-tree-sha1 = "a641238db938fff9b2f60d08ed9030387daf428c" uuid = "a2bd30eb-e257-5431-a919-1863eab51364" -version = "1.1.2" +version = "1.1.3" [[deps.Graphite2_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "344bf40dcab1073aca04aa0df4fb092f920e4011" +git-tree-sha1 = "01979f9b37367603e2848ea225918a3b3861b606" uuid = "3b182d85-2403-5c21-9c21-1e1f0cc25472" -version = "1.3.14+0" +version = "1.3.14+1" [[deps.Graphs]] deps = ["ArnoldiMethod", "Compat", "DataStructures", "Distributed", "Inflate", "LinearAlgebra", "Random", "SharedArrays", "SimpleTraits", "SparseArrays", "Statistics"] -git-tree-sha1 = "ebd18c326fa6cee1efb7da9a3b45cf69da2ed4d9" +git-tree-sha1 = "1dc470db8b1131cfc7fb4c115de89fe391b9e780" uuid = "86223c79-3864-5bf0-83f7-82e725a168b6" -version = "1.11.2" +version = "1.12.0" [[deps.GridLayoutBase]] deps = ["GeometryBasics", "InteractiveUtils", "Observables"] -git-tree-sha1 = "fc713f007cff99ff9e50accba6373624ddd33588" +git-tree-sha1 = "dc6bed05c15523624909b3953686c5f5ffa10adc" uuid = "3955a311-db13-416c-9275-1d80ed98e5e9" -version = "0.11.0" +version = "0.11.1" [[deps.Grisu]] git-tree-sha1 = "53bb909d1151e57e2484c3d1b53e19552b887fb2" @@ -1082,16 +1227,16 @@ weakdeps = ["MPI"] MPIExt = "MPI" [[deps.HDF5_jll]] -deps = ["Artifacts", "CompilerSupportLibraries_jll", "JLLWrappers", "LazyArtifacts", "LibCURL_jll", "Libdl", "MPICH_jll", "MPIPreferences", "MPItrampoline_jll", "MicrosoftMPI_jll", "OpenMPI_jll", "OpenSSL_jll", "TOML", "Zlib_jll", "libaec_jll"] -git-tree-sha1 = "82a471768b513dc39e471540fdadc84ff80ff997" +deps = ["Artifacts", "CompilerSupportLibraries_jll", "JLLWrappers", "LLVMOpenMP_jll", "LazyArtifacts", "LibCURL_jll", "Libdl", "MPICH_jll", "MPIPreferences", "MPItrampoline_jll", "MicrosoftMPI_jll", "OpenMPI_jll", "OpenSSL_jll", "TOML", "Zlib_jll", "libaec_jll"] +git-tree-sha1 = "38c8874692d48d5440d5752d6c74b0c6b0b60739" uuid = "0234f1f7-429e-5d53-9886-15a909be8d59" -version = "1.14.3+3" +version = "1.14.2+1" [[deps.HTTP]] -deps = ["Base64", "CodecZlib", "ConcurrentUtilities", "Dates", "ExceptionUnwrapping", "Logging", "LoggingExtras", "MbedTLS", "NetworkOptions", "OpenSSL", "Random", "SimpleBufferStream", "Sockets", "URIs", "UUIDs"] -git-tree-sha1 = "d1d712be3164d61d1fb98e7ce9bcbc6cc06b45ed" +deps = ["Base64", "CodecZlib", "ConcurrentUtilities", "Dates", "ExceptionUnwrapping", "Logging", "LoggingExtras", "MbedTLS", "NetworkOptions", "OpenSSL", "PrecompileTools", "Random", "SimpleBufferStream", "Sockets", "URIs", "UUIDs"] +git-tree-sha1 = "ae350b8225575cc3ea385d4131c81594f86dfe4f" uuid = "cd3eb016-35fb-5094-929b-558a96fad6f3" -version = "1.10.8" +version = "1.10.12" [[deps.HarfBuzz_jll]] deps = ["Artifacts", "Cairo_jll", "Fontconfig_jll", "FreeType2_jll", "Glib_jll", "Graphite2_jll", "JLLWrappers", "Libdl", "Libffi_jll"] @@ -1113,15 +1258,15 @@ version = "0.1.17" [[deps.Hwloc_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "5e19e1e4fa3e71b774ce746274364aef0234634e" +git-tree-sha1 = "50aedf345a709ab75872f80a2779568dc0bb461b" uuid = "e33a78d0-f292-5ffc-b300-72abe9b543c8" -version = "2.11.1+0" +version = "2.11.2+1" [[deps.HypergeometricFunctions]] deps = ["LinearAlgebra", "OpenLibm_jll", "SpecialFunctions"] -git-tree-sha1 = "7c4195be1649ae622304031ed46a2f4df989f1eb" +git-tree-sha1 = "b1c2585431c382e3fe5805874bda6aea90a95de9" uuid = "34004b35-14d8-5ef3-9330-4cdb6864b03a" -version = "0.3.24" +version = "0.3.25" [[deps.HypertextLiteral]] deps = ["Tricks"] @@ -1154,9 +1299,9 @@ version = "0.1.5" [[deps.ImageBinarization]] deps = ["HistogramThresholding", "ImageCore", "LinearAlgebra", "Polynomials", "Reexport", "Statistics"] -git-tree-sha1 = "f5356e7203c4a9954962e3757c08033f2efe578a" +git-tree-sha1 = "33485b4e40d1df46c806498c73ea32dc17475c59" uuid = "cbc4b850-ae4b-5111-9e64-df94c024a13d" -version = "0.3.0" +version = "0.3.1" [[deps.ImageContrastAdjustment]] deps = ["ImageBase", "ImageCore", "ImageTransformations", "Parameters"] @@ -1284,9 +1429,9 @@ version = "1.4.2" [[deps.IntegralArrays]] deps = ["ColorTypes", "FixedPointNumbers", "IntervalSets"] -git-tree-sha1 = "be8e690c3973443bec584db3346ddc904d4884eb" +git-tree-sha1 = "b842cbff3f44804a84fda409745cc8f04c029a20" uuid = "1d092043-8f09-5a30-832f-7509e371ab51" -version = "0.1.5" +version = "0.1.6" [[deps.IntelOpenMP_jll]] deps = ["Artifacts", "JLLWrappers", "LazyArtifacts", "Libdl"] @@ -1297,6 +1442,12 @@ version = "2024.2.1+0" [[deps.InteractiveUtils]] deps = ["Markdown"] uuid = "b77e0a4c-d291-57a0-90e8-8db25a27a240" +version = "1.11.0" + +[[deps.Interfaces]] +git-tree-sha1 = "331ff37738aea1a3cf841ddf085442f31b84324f" +uuid = "85a1e053-f937-4924-92a5-1367d23b7b87" +version = "0.3.2" [[deps.Interpolations]] deps = ["Adapt", "AxisAlgorithms", "ChainRulesCore", "LinearAlgebra", "OffsetArrays", "Random", "Ratios", "Requires", "SharedArrays", "SparseArrays", "StaticArrays", "WoodburyMatrices"] @@ -1309,17 +1460,16 @@ weakdeps = ["Unitful"] InterpolationsUnitfulExt = "Unitful" [[deps.IntervalArithmetic]] -deps = ["CRlibm_jll", "MacroTools", "RoundingEmulator"] -git-tree-sha1 = "fe30dec78e68f27fc416901629c6e24e9d5f057b" +deps = ["CRlibm_jll", "LinearAlgebra", "MacroTools", "RoundingEmulator"] +git-tree-sha1 = "24c095b1ec7ee58b936985d31d5df92f9b9cfebb" uuid = "d1acc4aa-44c8-5952-acd4-ba5d80a2a253" -version = "0.22.16" -weakdeps = ["DiffRules", "ForwardDiff", "IntervalSets", "LinearAlgebra", "RecipesBase"] +version = "0.22.19" +weakdeps = ["DiffRules", "ForwardDiff", "IntervalSets", "RecipesBase"] [deps.IntervalArithmetic.extensions] IntervalArithmeticDiffRulesExt = "DiffRules" IntervalArithmeticForwardDiffExt = "ForwardDiff" IntervalArithmeticIntervalSetsExt = "IntervalSets" - IntervalArithmeticLinearAlgebraExt = "LinearAlgebra" IntervalArithmeticRecipesBaseExt = "RecipesBase" [[deps.IntervalSets]] @@ -1334,9 +1484,9 @@ weakdeps = ["Random", "RecipesBase", "Statistics"] IntervalSetsStatisticsExt = "Statistics" [[deps.InverseFunctions]] -git-tree-sha1 = "2787db24f4e03daf859c6509ff87764e4182f7d1" +git-tree-sha1 = "a779299d77cd080bf77b97535acecd73e1c5e5cb" uuid = "3587e190-3f89-42d0-90ee-14403ec27112" -version = "0.1.16" +version = "0.1.17" weakdeps = ["Dates", "Test"] [deps.InverseFunctions.extensions] @@ -1370,22 +1520,22 @@ uuid = "82899510-4779-5014-852e-03e436cf321d" version = "1.0.0" [[deps.JLD2]] -deps = ["FileIO", "MacroTools", "Mmap", "OrderedCollections", "Pkg", "PrecompileTools", "Printf", "Reexport", "Requires", "TranscodingStreams", "UUIDs"] -git-tree-sha1 = "5ea6acdd53a51d897672edb694e3cc2912f3f8a7" +deps = ["FileIO", "MacroTools", "Mmap", "OrderedCollections", "PrecompileTools", "Requires", "TranscodingStreams"] +git-tree-sha1 = "a0746c21bdc986d0dc293efa6b1faee112c37c28" uuid = "033835bb-8acc-5ee8-8aae-3f567f8a3819" -version = "0.4.46" +version = "0.4.53" [[deps.JLFzf]] deps = ["Pipe", "REPL", "Random", "fzf_jll"] -git-tree-sha1 = "39d64b09147620f5ffbf6b2d3255be3c901bec63" +git-tree-sha1 = "71b48d857e86bf7a1838c4736545699974ce79a2" uuid = "1019f520-868f-41f5-a6de-eb00f4b6a39c" -version = "0.1.8" +version = "0.1.9" [[deps.JLLWrappers]] deps = ["Artifacts", "Preferences"] -git-tree-sha1 = "f389674c99bfcde17dc57454011aa44d5a260a40" +git-tree-sha1 = "be3dc50a92e5a386872a493a10050136d4703f9b" uuid = "692b3bcd-3c85-4b1f-b108-f13ce0eb3210" -version = "1.6.0" +version = "1.6.1" [[deps.JSON]] deps = ["Dates", "Mmap", "Parsers", "Unicode"] @@ -1395,9 +1545,9 @@ version = "0.21.4" [[deps.JSON3]] deps = ["Dates", "Mmap", "Parsers", "PrecompileTools", "StructTypes", "UUIDs"] -git-tree-sha1 = "eb3edce0ed4fa32f75a0a11217433c31d56bd48b" +git-tree-sha1 = "1d322381ef7b087548321d3f878cb4c9bd8f8f9b" uuid = "0f8b85d8-7281-11e9-16c2-39a750bddbf1" -version = "1.14.0" +version = "1.14.1" [deps.JSON3.extensions] JSON3ArrowExt = ["ArrowTypes"] @@ -1413,9 +1563,9 @@ version = "0.1.5" [[deps.JpegTurbo_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "c84a835e1a09b289ffcd2271bf2a337bbdda6637" +git-tree-sha1 = "25ee0be4d43d0269027024d75a24c24d6c6e590c" uuid = "aacddb02-875f-59d6-b918-886e6ef4fbf8" -version = "3.0.3+0" +version = "3.0.4+0" [[deps.JuliaNVTXCallbacks_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] @@ -1437,9 +1587,9 @@ version = "0.6.0" [[deps.KernelAbstractions]] deps = ["Adapt", "Atomix", "InteractiveUtils", "MacroTools", "PrecompileTools", "Requires", "StaticArrays", "UUIDs", "UnsafeAtomics", "UnsafeAtomicsLLVM"] -git-tree-sha1 = "cb1cff88ef2f3a157cbad75bbe6b229e1975e498" +git-tree-sha1 = "27044736be7c5727d35fc4318d7949dee33c37b4" uuid = "63c18a36-062a-441e-b654-da1e3ab1ce7c" -version = "0.9.25" +version = "0.9.30" weakdeps = ["EnzymeCore", "LinearAlgebra", "SparseArrays"] [deps.KernelAbstractions.extensions] @@ -1455,15 +1605,19 @@ version = "0.6.9" [[deps.Krylov]] deps = ["LinearAlgebra", "Printf", "SparseArrays"] -git-tree-sha1 = "267dad6b4b7b5d529c76d40ff48d33f7e94cb834" +git-tree-sha1 = "4f20a2df85a9e5d55c9e84634bbf808ed038cabd" uuid = "ba0b0d4f-ebba-5204-a429-3ac8c609bfb7" -version = "0.9.6" +version = "0.9.8" [[deps.KrylovKit]] -deps = ["ChainRulesCore", "GPUArraysCore", "LinearAlgebra", "Printf"] -git-tree-sha1 = "5cebb47f472f086f7dd31fb8e738a8db728f1f84" +deps = ["LinearAlgebra", "PackageExtensionCompat", "Printf", "Random", "VectorInterface"] +git-tree-sha1 = "d7ed24a88732689f26d3f12a817d181d4024bf44" uuid = "0b1a1467-8014-51b9-945f-bf0ae24f4b77" -version = "0.6.1" +version = "0.8.3" +weakdeps = ["ChainRulesCore"] + + [deps.KrylovKit.extensions] + KrylovKitChainRulesCoreExt = "ChainRulesCore" [[deps.LAME_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] @@ -1472,16 +1626,16 @@ uuid = "c1c5ebd0-6772-5130-a774-d5fcae4a789d" version = "3.100.2+0" [[deps.LERC_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "bf36f528eec6634efc60d7ec062008f171071434" +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "36bdbc52f13a7d1dcb0f3cd694e01677a515655b" uuid = "88015f11-f218-50d7-93a8-a6af411a945d" -version = "3.0.0+1" +version = "4.0.0+0" [[deps.LLVM]] -deps = ["CEnum", "LLVMExtra_jll", "Libdl", "Preferences", "Printf", "Requires", "Unicode"] -git-tree-sha1 = "839c82932db86740ae729779e610f07a1640be9a" +deps = ["CEnum", "LLVMExtra_jll", "Libdl", "Preferences", "Printf", "Unicode"] +git-tree-sha1 = "d422dfd9707bec6617335dc2ea3c5172a87d5908" uuid = "929cbde3-209d-540e-8aea-75f648917ca0" -version = "6.6.3" +version = "9.1.3" weakdeps = ["BFloat16s"] [deps.LLVM.extensions] @@ -1489,9 +1643,9 @@ weakdeps = ["BFloat16s"] [[deps.LLVMExtra_jll]] deps = ["Artifacts", "JLLWrappers", "LazyArtifacts", "Libdl", "TOML"] -git-tree-sha1 = "88b916503aac4fb7f701bb625cd84ca5dd1677bc" +git-tree-sha1 = "05a8bd5a42309a9ec82f700876903abce1017dd3" uuid = "dad2f222-ce93-54a1-a47d-0025e8a3acab" -version = "0.0.29+0" +version = "0.0.34+0" [[deps.LLVMLoopInfo]] git-tree-sha1 = "2e5c102cfc41f48ae4740c7eca7743cc7e7b75ea" @@ -1506,14 +1660,14 @@ version = "18.1.7+0" [[deps.LZO_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "70c5da094887fd2cae843b8db33920bac4b6f07d" +git-tree-sha1 = "854a9c268c43b77b0a27f22d7fab8d33cdb3a731" uuid = "dd4b983a-f0e5-5f8d-a1b7-129d4a5fb1ac" -version = "2.10.2+0" +version = "2.10.2+1" [[deps.LaTeXStrings]] -git-tree-sha1 = "50901ebc375ed41dbf8058da26f9de442febbbec" +git-tree-sha1 = "dda21b8cbd6a6c40d9d02a73230f9d70fed6918c" uuid = "b964fa9f-0449-5b57-a5c2-d3ea65f4040f" -version = "1.3.1" +version = "1.4.0" [[deps.Latexify]] deps = ["Format", "InteractiveUtils", "LaTeXStrings", "MacroTools", "Markdown", "OrderedCollections", "Requires"] @@ -1538,23 +1692,32 @@ uuid = "10f19ff3-798f-405d-979b-55457f8fc047" version = "0.1.17" [[deps.LazilyInitializedFields]] -git-tree-sha1 = "8f7f3cabab0fd1800699663533b6d5cb3fc0e612" +git-tree-sha1 = "0f2da712350b020bc3957f269c9caad516383ee0" uuid = "0e77f7df-68c5-4e49-93ce-4cd80f5598bf" -version = "1.2.2" +version = "1.3.0" [[deps.LazyArrays]] -deps = ["ArrayLayouts", "FillArrays", "LinearAlgebra", "MacroTools", "MatrixFactorizations", "SparseArrays"] -git-tree-sha1 = "35079a6a869eecace778bcda8641f9a54ca3a828" +deps = ["ArrayLayouts", "FillArrays", "LinearAlgebra", "MacroTools", "SparseArrays"] +git-tree-sha1 = "7a244220c6f22ddb5948acaac203ffb5d2283b0c" uuid = "5078a376-72f3-5289-bfd5-ec5146d43c02" -version = "1.10.0" -weakdeps = ["StaticArrays"] +version = "2.3.0" [deps.LazyArrays.extensions] + LazyArraysBandedMatricesExt = "BandedMatrices" + LazyArraysBlockArraysExt = "BlockArrays" + LazyArraysBlockBandedMatricesExt = "BlockBandedMatrices" LazyArraysStaticArraysExt = "StaticArrays" + [deps.LazyArrays.weakdeps] + BandedMatrices = "aae01518-5342-5314-be14-df237901396f" + BlockArrays = "8e7c35d0-a365-5155-bbbb-fb81a777f24e" + BlockBandedMatrices = "ffab5731-97b5-5995-9138-79e8c1846df0" + StaticArrays = "90137ffa-7385-5640-81b9-e52037218182" + [[deps.LazyArtifacts]] deps = ["Artifacts", "Pkg"] uuid = "4af54fe1-eca0-43a8-85a7-787d91b784e3" +version = "1.11.0" [[deps.LazyModules]] git-tree-sha1 = "a560dd966b386ac9ae60bdd3a3d3a326062d3c3e" @@ -1569,16 +1732,17 @@ version = "0.6.4" [[deps.LibCURL_jll]] deps = ["Artifacts", "LibSSH2_jll", "Libdl", "MbedTLS_jll", "Zlib_jll", "nghttp2_jll"] uuid = "deac9b47-8bc7-5906-a0fe-35ac56dc84c0" -version = "8.4.0+0" +version = "8.6.0+0" [[deps.LibGit2]] deps = ["Base64", "LibGit2_jll", "NetworkOptions", "Printf", "SHA"] uuid = "76f85450-5226-5b5a-8eaa-529ad045b433" +version = "1.11.0" [[deps.LibGit2_jll]] deps = ["Artifacts", "LibSSH2_jll", "Libdl", "MbedTLS_jll"] uuid = "e37daf67-58a4-590a-8e99-b0245dd2ffc5" -version = "1.6.4+0" +version = "1.7.2+0" [[deps.LibSSH2_jll]] deps = ["Artifacts", "Libdl", "MbedTLS_jll"] @@ -1587,6 +1751,7 @@ version = "1.11.0+1" [[deps.Libdl]] uuid = "8f399da3-3557-5675-b5ff-fb832c97cbdb" +version = "1.11.0" [[deps.Libffi_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] @@ -1596,45 +1761,55 @@ version = "3.2.2+1" [[deps.Libgcrypt_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Libgpg_error_jll"] -git-tree-sha1 = "9fd170c4bbfd8b935fdc5f8b7aa33532c991a673" +git-tree-sha1 = "8be878062e0ffa2c3f67bb58a595375eda5de80b" uuid = "d4300ac3-e22c-5743-9152-c294e39db1e4" -version = "1.8.11+0" +version = "1.11.0+0" [[deps.Libglvnd_jll]] -deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg", "Xorg_libX11_jll", "Xorg_libXext_jll"] -git-tree-sha1 = "6f73d1dd803986947b2c750138528a999a6c7733" +deps = ["Artifacts", "JLLWrappers", "Libdl", "Xorg_libX11_jll", "Xorg_libXext_jll"] +git-tree-sha1 = "ff3b4b9d35de638936a525ecd36e86a8bb919d11" uuid = "7e76a0d4-f3c7-5321-8279-8d96eeed0f29" -version = "1.6.0+0" +version = "1.7.0+0" [[deps.Libgpg_error_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "fbb1f2bef882392312feb1ede3615ddc1e9b99ed" +git-tree-sha1 = "c6ce1e19f3aec9b59186bdf06cdf3c4fc5f5f3e6" uuid = "7add5ba3-2f88-524e-9cd5-f83b8a55f7b8" -version = "1.49.0+0" +version = "1.50.0+0" [[deps.Libiconv_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "f9557a255370125b405568f9767d6d195822a175" +git-tree-sha1 = "61dfdba58e585066d8bce214c5a51eaa0539f269" uuid = "94ce4f54-9a6c-5748-9c1c-f9c7231a4531" -version = "1.17.0+0" +version = "1.17.0+1" [[deps.Libmount_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "0c4f9c4f1a50d8f35048fa0532dabbadf702f81e" +git-tree-sha1 = "84eef7acd508ee5b3e956a2ae51b05024181dee0" uuid = "4b2f31a3-9ecc-558c-b454-b3730dcb73e9" -version = "2.40.1+0" +version = "2.40.2+0" [[deps.Libtiff_jll]] deps = ["Artifacts", "JLLWrappers", "JpegTurbo_jll", "LERC_jll", "Libdl", "XZ_jll", "Zlib_jll", "Zstd_jll"] -git-tree-sha1 = "2da088d113af58221c52828a80378e16be7d037a" +git-tree-sha1 = "b404131d06f7886402758c9ce2214b636eb4d54a" uuid = "89763e89-9b03-5906-acba-b20f662cd828" -version = "4.5.1+1" +version = "4.7.0+0" [[deps.Libuuid_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "5ee6203157c120d79034c748a2acba45b82b8807" +git-tree-sha1 = "edbf5309f9ddf1cab25afc344b1e8150b7c832f9" uuid = "38a345b3-de98-5d2b-a5d3-14cd9215e700" -version = "2.40.1+0" +version = "2.40.2+0" + +[[deps.LineSearch]] +deps = ["ADTypes", "CommonSolve", "ConcreteStructs", "FastClosures", "LinearAlgebra", "MaybeInplace", "SciMLBase", "SciMLJacobianOperators", "StaticArraysCore"] +git-tree-sha1 = "97d502765cc5cf3a722120f50da03c2474efce04" +uuid = "87fe0de2-c867-4266-b59a-2f0a94fc965b" +version = "0.1.4" +weakdeps = ["LineSearches"] + + [deps.LineSearch.extensions] + LineSearchLineSearchesExt = "LineSearches" [[deps.LineSearches]] deps = ["LinearAlgebra", "NLSolversBase", "NaNMath", "Parameters", "Printf"] @@ -1645,6 +1820,7 @@ version = "7.3.0" [[deps.LinearAlgebra]] deps = ["Libdl", "OpenBLAS_jll", "libblastrampoline_jll"] uuid = "37e2e46d-f89d-539d-b4ee-838fcccc9c8e" +version = "1.11.0" [[deps.LinearMaps]] deps = ["LinearAlgebra"] @@ -1660,17 +1836,17 @@ weakdeps = ["ChainRulesCore", "SparseArrays", "Statistics"] [[deps.LinearSolve]] deps = ["ArrayInterface", "ChainRulesCore", "ConcreteStructs", "DocStringExtensions", "EnumX", "FastLapackInterface", "GPUArraysCore", "InteractiveUtils", "KLU", "Krylov", "LazyArrays", "Libdl", "LinearAlgebra", "MKL_jll", "Markdown", "PrecompileTools", "Preferences", "RecursiveFactorization", "Reexport", "SciMLBase", "SciMLOperators", "Setfield", "SparseArrays", "Sparspak", "StaticArraysCore", "UnPack"] -git-tree-sha1 = "7648cc20100504f4b453917aacc8520e9c0ecfb3" +git-tree-sha1 = "9d5872d134bd33dd3e120767004f760770958863" uuid = "7ed4a6bd-45f5-4d41-b270-4a48e9bafcae" -version = "2.30.1" +version = "2.38.0" [deps.LinearSolve.extensions] LinearSolveBandedMatricesExt = "BandedMatrices" LinearSolveBlockDiagonalsExt = "BlockDiagonals" LinearSolveCUDAExt = "CUDA" LinearSolveCUDSSExt = "CUDSS" - LinearSolveEnzymeExt = ["Enzyme", "EnzymeCore"] - LinearSolveFastAlmostBandedMatricesExt = ["FastAlmostBandedMatrices"] + LinearSolveEnzymeExt = "EnzymeCore" + LinearSolveFastAlmostBandedMatricesExt = "FastAlmostBandedMatrices" LinearSolveHYPREExt = "HYPRE" LinearSolveIterativeSolversExt = "IterativeSolvers" LinearSolveKernelAbstractionsExt = "KernelAbstractions" @@ -1684,7 +1860,6 @@ version = "2.30.1" BlockDiagonals = "0a1fb500-61f7-11e9-3c65-f5ef3456f9f0" CUDA = "052768ef-5323-5732-b1bb-66c8b64840ba" CUDSS = "45b445bb-4962-46a0-9369-b4df9d0f772e" - Enzyme = "7da242da-08ed-463a-9acd-ee780be4f1d9" EnzymeCore = "f151be2c-9106-41f4-ab19-57ee4f262869" FastAlmostBandedMatrices = "9d29842c-ecb8-4973-b1e9-a27b1157504e" HYPRE = "b5ffcf37-a2bd-41ab-a3da-4bd9bc8ad771" @@ -1719,18 +1894,19 @@ version = "0.3.28" [[deps.Logging]] uuid = "56ddb016-857b-54e1-b83d-db4d58db5568" +version = "1.11.0" [[deps.LoggingExtras]] deps = ["Dates", "Logging"] -git-tree-sha1 = "c1dd6d7978c12545b4179fb6153b9250c96b0075" +git-tree-sha1 = "f02b56007b064fbfddb4c9cd60161b6dd0f40df3" uuid = "e6f89c97-d47a-5376-807f-9c37f3926c36" -version = "1.0.3" +version = "1.1.0" [[deps.LoopVectorization]] deps = ["ArrayInterface", "CPUSummary", "CloseOpenIntervals", "DocStringExtensions", "HostCPUFeatures", "IfElse", "LayoutPointers", "LinearAlgebra", "OffsetArrays", "PolyesterWeave", "PrecompileTools", "SIMDTypes", "SLEEFPirates", "Static", "StaticArrayInterface", "ThreadingUtilities", "UnPack", "VectorizationBase"] -git-tree-sha1 = "a13f3be5d84b9c95465d743c82af0b094ef9c2e2" +git-tree-sha1 = "8084c25a250e00ae427a379a5b607e7aed96a2dd" uuid = "bdcacae8-1622-11e9-2a5c-532679323890" -version = "0.12.169" +version = "0.12.171" weakdeps = ["ChainRulesCore", "ForwardDiff", "SpecialFunctions"] [deps.LoopVectorization.extensions] @@ -1739,9 +1915,9 @@ weakdeps = ["ChainRulesCore", "ForwardDiff", "SpecialFunctions"] [[deps.LossFunctions]] deps = ["Markdown", "Requires", "Statistics"] -git-tree-sha1 = "8073538845227d3acf8a0c149bf0e150e60d0ced" +git-tree-sha1 = "18392e6cb422974dd72945486f2ce8d6ca61f9fb" uuid = "30fc2ffe-d236-52d8-8643-a9d8f7c094a7" -version = "0.11.2" +version = "1.0.0" [deps.LossFunctions.extensions] LossFunctionsCategoricalArraysExt = "CategoricalArrays" @@ -1760,11 +1936,55 @@ git-tree-sha1 = "f046ccd0c6db2832a9f639e2c669c6fe867e5f4f" uuid = "856f044c-d86e-5d09-b602-aeab76dc8ba7" version = "2024.2.0+0" +[[deps.MLDataDevices]] +deps = ["Adapt", "Compat", "Functors", "Preferences", "Random"] +git-tree-sha1 = "2580925570e9906bb812896c7940345b68cdb6a3" +uuid = "7e8f7934-dd98-4c1a-8fe8-92b47a384d40" +version = "1.6.3" + + [deps.MLDataDevices.extensions] + MLDataDevicesAMDGPUExt = "AMDGPU" + MLDataDevicesCUDAExt = "CUDA" + MLDataDevicesChainRulesCoreExt = "ChainRulesCore" + MLDataDevicesChainRulesExt = "ChainRules" + MLDataDevicesFillArraysExt = "FillArrays" + MLDataDevicesGPUArraysExt = "GPUArrays" + MLDataDevicesMLUtilsExt = "MLUtils" + MLDataDevicesMetalExt = ["GPUArrays", "Metal"] + MLDataDevicesOneHotArraysExt = "OneHotArrays" + MLDataDevicesReactantExt = "Reactant" + MLDataDevicesRecursiveArrayToolsExt = "RecursiveArrayTools" + MLDataDevicesReverseDiffExt = "ReverseDiff" + MLDataDevicesSparseArraysExt = "SparseArrays" + MLDataDevicesTrackerExt = "Tracker" + MLDataDevicesZygoteExt = "Zygote" + MLDataDevicescuDNNExt = ["CUDA", "cuDNN"] + MLDataDevicesoneAPIExt = ["GPUArrays", "oneAPI"] + + [deps.MLDataDevices.weakdeps] + AMDGPU = "21141c5a-9bdb-4563-92ae-f87d6854732e" + CUDA = "052768ef-5323-5732-b1bb-66c8b64840ba" + ChainRules = "082447d4-558c-5d27-93f4-14fc19e9eca2" + ChainRulesCore = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4" + FillArrays = "1a297f60-69ca-5386-bcde-b61e274b549b" + GPUArrays = "0c68f7d7-f131-5f86-a1c3-88cf8149b2d7" + MLUtils = "f1d291b0-491e-4a28-83b9-f70985020b54" + Metal = "dde4c033-4e86-420c-a63e-0dd931031962" + OneHotArrays = "0b1bfda6-eb8a-41d2-88d8-f5af5cad476f" + Reactant = "3c362404-f566-11ee-1572-e11a4b42c853" + RecursiveArrayTools = "731186ca-8d62-57ce-b412-fbd966d074cd" + ReverseDiff = "37e2e3b7-166d-5795-8a7a-e32c996b4267" + SparseArrays = "2f01184e-e22b-5df5-ae63-d93ebab69eaf" + Tracker = "9f7883ad-71c0-57eb-9f7f-b5c9e6d3789c" + Zygote = "e88e6eb3-aa80-5325-afca-941959d7151f" + cuDNN = "02a925ec-e4fe-4b08-9a7e-0d78e3d38ccd" + oneAPI = "8f75cd03-7ff8-4ecb-9b8f-daf728133b1b" + [[deps.MLJModelInterface]] deps = ["Random", "ScientificTypesBase", "StatisticalTraits"] -git-tree-sha1 = "d2a45e1b5998ba3fdfb6cfe0c81096d4c7fb40e7" +git-tree-sha1 = "ceaff6618408d0e412619321ae43b33b40c1a733" uuid = "e80e1ace-859a-464e-9ed9-23947d8ae3ea" -version = "1.9.6" +version = "1.11.0" [[deps.MLStyle]] git-tree-sha1 = "bc38dff0548128765760c79eb7388a4b37fae2c8" @@ -1779,9 +1999,9 @@ version = "0.4.4" [[deps.MPI]] deps = ["Distributed", "DocStringExtensions", "Libdl", "MPICH_jll", "MPIPreferences", "MPItrampoline_jll", "MicrosoftMPI_jll", "OpenMPI_jll", "PkgVersion", "PrecompileTools", "Requires", "Serialization", "Sockets"] -git-tree-sha1 = "14cef41baf5b675b192b02a22c710f725ab333a7" +git-tree-sha1 = "892676019c58f34e38743bc989b0eca5bce5edc5" uuid = "da04e1cc-30fd-572f-bb4f-1f8673147195" -version = "0.20.20" +version = "0.20.22" [deps.MPI.extensions] AMDGPUExt = "AMDGPU" @@ -1793,9 +2013,9 @@ version = "0.20.20" [[deps.MPICH_jll]] deps = ["Artifacts", "CompilerSupportLibraries_jll", "Hwloc_jll", "JLLWrappers", "LazyArtifacts", "Libdl", "MPIPreferences", "TOML"] -git-tree-sha1 = "19d4bd098928a3263693991500d05d74dbdc2004" +git-tree-sha1 = "7715e65c47ba3941c502bffb7f266a41a7f54423" uuid = "7cb0a576-ebde-5e09-9194-50597f1243b4" -version = "4.2.2+0" +version = "4.2.3+0" [[deps.MPIPreferences]] deps = ["Libdl", "Preferences"] @@ -1805,9 +2025,9 @@ version = "0.1.11" [[deps.MPItrampoline_jll]] deps = ["Artifacts", "CompilerSupportLibraries_jll", "JLLWrappers", "LazyArtifacts", "Libdl", "MPIPreferences", "TOML"] -git-tree-sha1 = "8c35d5420193841b2f367e658540e8d9e0601ed0" +git-tree-sha1 = "70e830dab5d0775183c99fc75e4c24c614ed7142" uuid = "f1f71cc9-e9ae-5b93-9b94-4fe0e1ad3748" -version = "5.4.0+0" +version = "5.5.1+0" [[deps.MacroTools]] deps = ["Markdown", "Random"] @@ -1829,9 +2049,9 @@ version = "0.8.6" [[deps.Malt]] deps = ["Distributed", "Logging", "RelocatableFolders", "Serialization", "Sockets"] -git-tree-sha1 = "18cf4151e390fce29ca846b92b06baf9bc6e002e" +git-tree-sha1 = "02a728ada9d6caae583a0f87c1dd3844f99ec3fd" uuid = "36869731-bdee-424d-aa32-cab38c994e3b" -version = "1.1.1" +version = "1.1.2" [[deps.ManualMemory]] git-tree-sha1 = "bcaef4fc7a0cfe2cba636d84cda54b5e4e4ca3cd" @@ -1846,12 +2066,13 @@ version = "0.4.2" [[deps.Markdown]] deps = ["Base64"] uuid = "d6f4376e-aef5-505a-96c1-9c027394607a" +version = "1.11.0" [[deps.MathTeXEngine]] deps = ["AbstractTrees", "Automa", "DataStructures", "FreeTypeAbstraction", "GeometryBasics", "LaTeXStrings", "REPL", "RelocatableFolders", "UnicodeFun"] -git-tree-sha1 = "e1641f32ae592e415e3dbae7f4a188b5316d4b62" +git-tree-sha1 = "f45c8916e8385976e1ccd055c9874560c257ab13" uuid = "0a4f8689-d25c-4efe-a92b-7142dfc1aa53" -version = "0.6.1" +version = "0.6.2" [[deps.MatrixEquations]] deps = ["LinearAlgebra", "LinearMaps"] @@ -1859,12 +2080,6 @@ git-tree-sha1 = "f765b4eda3ea9be8e644b9127809ca5151f3d9ea" uuid = "99c1a7ee-ab34-5fd5-8076-27c950a045f4" version = "2.4.2" -[[deps.MatrixFactorizations]] -deps = ["ArrayLayouts", "LinearAlgebra", "Printf", "Random"] -git-tree-sha1 = "6731e0574fa5ee21c02733e397beb133df90de35" -uuid = "a3b82374-2e81-5b9e-98ce-41277c0e4c87" -version = "2.2.0" - [[deps.MaybeInplace]] deps = ["ArrayInterface", "LinearAlgebra", "MacroTools"] git-tree-sha1 = "54e2fdc38130c05b42be423e90da3bade29b74bd" @@ -1884,7 +2099,7 @@ version = "1.1.9" [[deps.MbedTLS_jll]] deps = ["Artifacts", "Libdl"] uuid = "c8ffd9c3-330d-5841-b78e-0817d7145fa1" -version = "2.28.2+1" +version = "2.28.6+0" [[deps.Measures]] git-tree-sha1 = "c13304c81eec1ed3af7fc20e75fb6b26092a1102" @@ -1911,9 +2126,9 @@ version = "0.1.14" [[deps.MicrosoftMPI_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "f12a29c4400ba812841c6ace3f4efbb6dbb3ba01" +git-tree-sha1 = "bc95bf4149bf535c09602e3acdf950d9b4376227" uuid = "9237b28f-5490-5468-be7b-bb81f5f5e6cf" -version = "10.1.4+2" +version = "10.1.4+3" [[deps.Missings]] deps = ["DataAPI"] @@ -1923,6 +2138,7 @@ version = "1.2.0" [[deps.Mmap]] uuid = "a63ad114-7e13-5084-954f-fe012c677804" +version = "1.11.0" [[deps.MosaicViews]] deps = ["MappedArrays", "OffsetArrays", "PaddedViews", "StackViews"] @@ -1932,7 +2148,7 @@ version = "0.3.4" [[deps.MozillaCACerts_jll]] uuid = "14a3606d-f60d-562e-9121-12d972cd8159" -version = "2023.1.10" +version = "2023.12.12" [[deps.MsgPack]] deps = ["Serialization"] @@ -1946,10 +2162,10 @@ uuid = "46d2c3a1-f734-5fdb-9937-b9b9aeba4221" version = "0.2.4" [[deps.MultivariateStats]] -deps = ["Arpack", "LinearAlgebra", "SparseArrays", "Statistics", "StatsAPI", "StatsBase"] -git-tree-sha1 = "68bf5103e002c44adfd71fea6bd770b3f0586843" +deps = ["Arpack", "Distributions", "LinearAlgebra", "SparseArrays", "Statistics", "StatsAPI", "StatsBase"] +git-tree-sha1 = "816620e3aac93e5b5359e4fdaf23ca4525b00ddf" uuid = "6f286f6a-111f-5878-ab1e-185364afe411" -version = "0.10.2" +version = "0.10.3" [[deps.NLSolversBase]] deps = ["DiffResults", "Distributed", "FiniteDiff", "ForwardDiff"] @@ -1959,9 +2175,9 @@ version = "7.8.3" [[deps.NNlib]] deps = ["Adapt", "Atomix", "ChainRulesCore", "GPUArraysCore", "KernelAbstractions", "LinearAlgebra", "Random", "Statistics"] -git-tree-sha1 = "4a83c2e01027a0bfcea28589222f2df60b2e20cb" +git-tree-sha1 = "1177f161cda2083543b9967d7ca2a3e24e721e13" uuid = "872c559c-99b0-510c-b3b7-b6c96a88d5cd" -version = "0.9.23" +version = "0.9.26" [deps.NNlib.extensions] NNlibAMDGPUExt = "AMDGPU" @@ -1987,9 +2203,9 @@ version = "0.4.3" [[deps.NVTX]] deps = ["Colors", "JuliaNVTXCallbacks_jll", "Libdl", "NVTX_jll"] -git-tree-sha1 = "53046f0483375e3ed78e49190f1154fa0a4083a1" +git-tree-sha1 = "6a6f8bfaa91bb2e40ff562ab9f30dc827741daef" uuid = "5da4648a-3479-48b8-97b9-01cb529c0a1f" -version = "0.3.4" +version = "0.3.5" [[deps.NVTX_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] @@ -2011,9 +2227,9 @@ version = "0.1.5" [[deps.NearestNeighbors]] deps = ["Distances", "StaticArrays"] -git-tree-sha1 = "91a67b4d73842da90b526011fa85c5c4c9343fe0" +git-tree-sha1 = "8a3271d8309285f4db73b4f662b1b290c715e85e" uuid = "b8a86587-4115-5ab1-83bc-aa920d37bbce" -version = "0.4.18" +version = "0.4.21" [[deps.Netpbm]] deps = ["FileIO", "ImageCore", "ImageMetadata"] @@ -2026,36 +2242,78 @@ uuid = "ca575930-c2e3-43a9-ace4-1e988b2c1908" version = "1.2.0" [[deps.NonlinearSolve]] -deps = ["ADTypes", "ArrayInterface", "ConcreteStructs", "DiffEqBase", "FastBroadcast", "FastClosures", "FiniteDiff", "ForwardDiff", "LazyArrays", "LineSearches", "LinearAlgebra", "LinearSolve", "MaybeInplace", "PrecompileTools", "Preferences", "Printf", "RecursiveArrayTools", "Reexport", "SciMLBase", "SimpleNonlinearSolve", "SparseArrays", "SparseDiffTools", "StaticArraysCore", "SymbolicIndexingInterface", "TimerOutputs"] -git-tree-sha1 = "4891b745bd621f88aac661f2504d014931b443ba" +deps = ["ADTypes", "ArrayInterface", "BracketingNonlinearSolve", "CommonSolve", "ConcreteStructs", "DiffEqBase", "DifferentiationInterface", "FastClosures", "FiniteDiff", "ForwardDiff", "LineSearch", "LinearAlgebra", "LinearSolve", "NonlinearSolveBase", "NonlinearSolveFirstOrder", "NonlinearSolveQuasiNewton", "NonlinearSolveSpectralMethods", "PrecompileTools", "Preferences", "Reexport", "SciMLBase", "SimpleNonlinearSolve", "SparseArrays", "SparseMatrixColorings", "StaticArraysCore", "SymbolicIndexingInterface"] +git-tree-sha1 = "e646d238e65928630a5f557c0676051a11504c9d" uuid = "8913a72c-1f9b-4ce2-8d82-65094dcecaec" -version = "3.10.0" +version = "4.2.0" [deps.NonlinearSolve.extensions] - NonlinearSolveBandedMatricesExt = "BandedMatrices" NonlinearSolveFastLevenbergMarquardtExt = "FastLevenbergMarquardt" NonlinearSolveFixedPointAccelerationExt = "FixedPointAcceleration" NonlinearSolveLeastSquaresOptimExt = "LeastSquaresOptim" NonlinearSolveMINPACKExt = "MINPACK" NonlinearSolveNLSolversExt = "NLSolvers" - NonlinearSolveNLsolveExt = "NLsolve" + NonlinearSolveNLsolveExt = ["NLsolve", "LineSearches"] + NonlinearSolvePETScExt = ["PETSc", "MPI"] NonlinearSolveSIAMFANLEquationsExt = "SIAMFANLEquations" NonlinearSolveSpeedMappingExt = "SpeedMapping" - NonlinearSolveSymbolicsExt = "Symbolics" - NonlinearSolveZygoteExt = "Zygote" + NonlinearSolveSundialsExt = "Sundials" [deps.NonlinearSolve.weakdeps] - BandedMatrices = "aae01518-5342-5314-be14-df237901396f" FastLevenbergMarquardt = "7a0df574-e128-4d35-8cbd-3d84502bf7ce" FixedPointAcceleration = "817d07cb-a79a-5c30-9a31-890123675176" LeastSquaresOptim = "0fc2ff8b-aaa3-5acd-a817-1944a5e08891" + LineSearches = "d3d80556-e9d4-5f37-9878-2ab0fcc64255" MINPACK = "4854310b-de5a-5eb6-a2a5-c1dee2bd17f9" + MPI = "da04e1cc-30fd-572f-bb4f-1f8673147195" NLSolvers = "337daf1e-9722-11e9-073e-8b9effe078ba" NLsolve = "2774e3e8-f4cf-5e23-947b-6d7e65073b56" + PETSc = "ace2c81b-2b5f-4b1e-a30d-d662738edfe0" SIAMFANLEquations = "084e46ad-d928-497d-ad5e-07fa361a48c4" SpeedMapping = "f1835b91-879b-4a3f-a438-e4baacf14412" - Symbolics = "0c5d862f-8b57-4792-8d23-62f2024744c7" - Zygote = "e88e6eb3-aa80-5325-afca-941959d7151f" + Sundials = "c3572dad-4567-51f8-b174-8c6c989267f4" + +[[deps.NonlinearSolveBase]] +deps = ["ADTypes", "Adapt", "ArrayInterface", "CommonSolve", "Compat", "ConcreteStructs", "DifferentiationInterface", "EnzymeCore", "FastClosures", "FunctionProperties", "LinearAlgebra", "Markdown", "MaybeInplace", "Preferences", "Printf", "RecursiveArrayTools", "SciMLBase", "SciMLJacobianOperators", "SciMLOperators", "StaticArraysCore", "SymbolicIndexingInterface", "TimerOutputs"] +git-tree-sha1 = "46772fc296d9f16c3ab78a8ef00008ab075de677" +uuid = "be0214bd-f91f-a760-ac4e-3421ce2b2da0" +version = "1.3.3" + + [deps.NonlinearSolveBase.extensions] + NonlinearSolveBaseBandedMatricesExt = "BandedMatrices" + NonlinearSolveBaseDiffEqBaseExt = "DiffEqBase" + NonlinearSolveBaseForwardDiffExt = "ForwardDiff" + NonlinearSolveBaseLineSearchExt = "LineSearch" + NonlinearSolveBaseLinearSolveExt = "LinearSolve" + NonlinearSolveBaseSparseArraysExt = "SparseArrays" + NonlinearSolveBaseSparseMatrixColoringsExt = "SparseMatrixColorings" + + [deps.NonlinearSolveBase.weakdeps] + BandedMatrices = "aae01518-5342-5314-be14-df237901396f" + DiffEqBase = "2b5f629d-d688-5b77-993f-72d75c75574e" + ForwardDiff = "f6369f11-7733-5829-9624-2563aa707210" + LineSearch = "87fe0de2-c867-4266-b59a-2f0a94fc965b" + LinearSolve = "7ed4a6bd-45f5-4d41-b270-4a48e9bafcae" + SparseArrays = "2f01184e-e22b-5df5-ae63-d93ebab69eaf" + SparseMatrixColorings = "0a514795-09f3-496d-8182-132a7b665d35" + +[[deps.NonlinearSolveFirstOrder]] +deps = ["ADTypes", "ArrayInterface", "CommonSolve", "ConcreteStructs", "DiffEqBase", "FiniteDiff", "ForwardDiff", "LineSearch", "LinearAlgebra", "LinearSolve", "MaybeInplace", "NonlinearSolveBase", "PrecompileTools", "Reexport", "SciMLBase", "SciMLJacobianOperators", "Setfield", "StaticArraysCore"] +git-tree-sha1 = "05a42691900f8f14e930478d5638a5f0fc973601" +uuid = "5959db7a-ea39-4486-b5fe-2dd0bf03d60d" +version = "1.1.0" + +[[deps.NonlinearSolveQuasiNewton]] +deps = ["ArrayInterface", "CommonSolve", "ConcreteStructs", "DiffEqBase", "LinearAlgebra", "LinearSolve", "MaybeInplace", "NonlinearSolveBase", "PrecompileTools", "Reexport", "SciMLBase", "SciMLOperators", "StaticArraysCore"] +git-tree-sha1 = "066d4940938f4bb5fd1ce146e61a373f40b89d31" +uuid = "9a2c21bd-3a47-402d-9113-8faf9a0ee114" +version = "1.0.0" + +[[deps.NonlinearSolveSpectralMethods]] +deps = ["CommonSolve", "ConcreteStructs", "DiffEqBase", "LineSearch", "MaybeInplace", "NonlinearSolveBase", "PrecompileTools", "Reexport", "SciMLBase"] +git-tree-sha1 = "cc97c44e396ab820401c8c404bc1fd18d4c884bd" +uuid = "26075421-4e9a-44e1-8bd1-420ed7ad02b2" +version = "1.0.0" [[deps.Observables]] git-tree-sha1 = "7438a59546cf62428fc9d1bc94729146d37a7225" @@ -2079,20 +2337,20 @@ version = "1.3.5+1" [[deps.OneHotArrays]] deps = ["Adapt", "ChainRulesCore", "Compat", "GPUArraysCore", "LinearAlgebra", "NNlib"] -git-tree-sha1 = "963a3f28a2e65bb87a68033ea4a616002406037d" +git-tree-sha1 = "c8c7f6bfabe581dc40b580313a75f1ecce087e27" uuid = "0b1bfda6-eb8a-41d2-88d8-f5af5cad476f" -version = "0.2.5" +version = "0.2.6" [[deps.OpenBLAS_jll]] deps = ["Artifacts", "CompilerSupportLibraries_jll", "Libdl"] uuid = "4536629a-c528-5b80-bd46-f80d51c5b363" -version = "0.3.23+4" +version = "0.3.27+1" [[deps.OpenEXR]] deps = ["Colors", "FileIO", "OpenEXR_jll"] -git-tree-sha1 = "327f53360fdb54df7ecd01e96ef1983536d1e633" +git-tree-sha1 = "97db9e07fe2091882c765380ef58ec553074e9c7" uuid = "52e1d378-f018-4a11-a4be-720524705ac7" -version = "0.3.2" +version = "0.3.3" [[deps.OpenEXR_jll]] deps = ["Artifacts", "Imath_jll", "JLLWrappers", "Libdl", "Zlib_jll"] @@ -2112,10 +2370,10 @@ uuid = "05823500-19ac-5b8b-9628-191a04bc5112" version = "0.8.1+2" [[deps.OpenMPI_jll]] -deps = ["Artifacts", "CompilerSupportLibraries_jll", "JLLWrappers", "LazyArtifacts", "Libdl", "MPIPreferences", "TOML"] -git-tree-sha1 = "e25c1778a98e34219a00455d6e4384e017ea9762" +deps = ["Artifacts", "CompilerSupportLibraries_jll", "Hwloc_jll", "JLLWrappers", "LazyArtifacts", "Libdl", "MPIPreferences", "TOML", "Zlib_jll"] +git-tree-sha1 = "2dace87e14256edb1dd0724ab7ba831c779b96bd" uuid = "fe0851c0-eecd-5654-98d4-656369965a5c" -version = "4.1.6+0" +version = "5.0.6+0" [[deps.OpenSSL]] deps = ["BitFlags", "Dates", "MozillaCACerts_jll", "OpenSSL_jll", "Sockets"] @@ -2125,9 +2383,9 @@ version = "1.4.3" [[deps.OpenSSL_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "1b35263570443fdd9e76c76b7062116e2f374ab8" +git-tree-sha1 = "7493f61f55a6cce7325f197443aa80d32554ba10" uuid = "458c3c95-2e84-50aa-8efc-19380b2a3a95" -version = "3.0.15+0" +version = "3.0.15+1" [[deps.OpenSpecFun_jll]] deps = ["Artifacts", "CompilerSupportLibraries_jll", "JLLWrappers", "Libdl", "Pkg"] @@ -2137,9 +2395,9 @@ version = "0.5.5+0" [[deps.Optim]] deps = ["Compat", "FillArrays", "ForwardDiff", "LineSearches", "LinearAlgebra", "NLSolversBase", "NaNMath", "Parameters", "PositiveFactorizations", "Printf", "SparseArrays", "StatsBase"] -git-tree-sha1 = "d9b79c4eed437421ac4285148fcadf42e0700e89" +git-tree-sha1 = "ab7edad78cdef22099f43c54ef77ac63c2c9cc64" uuid = "429524aa-4258-5aef-a3af-852621145aeb" -version = "1.9.4" +version = "1.10.0" [deps.Optim.extensions] OptimMOIExt = "MathOptInterface" @@ -2149,9 +2407,13 @@ version = "1.9.4" [[deps.Optimisers]] deps = ["ChainRulesCore", "Functors", "LinearAlgebra", "Random", "Statistics"] -git-tree-sha1 = "6572fe0c5b74431aaeb0b18a4aa5ef03c84678be" +git-tree-sha1 = "09000e0bdec3aed6e3dff553c9fb010d27de56ee" uuid = "3bd65402-5787-11e9-1adc-39752487f4e2" -version = "0.3.3" +version = "0.4.1" +weakdeps = ["EnzymeCore"] + + [deps.Optimisers.extensions] + OptimisersEnzymeCoreExt = "EnzymeCore" [[deps.Opus_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] @@ -2160,9 +2422,9 @@ uuid = "91d4177d-7536-5919-b921-800302f37372" version = "1.3.3+0" [[deps.OrderedCollections]] -git-tree-sha1 = "dfdf5519f235516220579f949664f1bf44e741c5" +git-tree-sha1 = "12f1439c4f986bb868acda6ea33ebc78e19b95ad" uuid = "bac558e1-5e72-5ebc-8fee-abe8a469f55d" -version = "1.6.3" +version = "1.7.0" [[deps.PCRE2_jll]] deps = ["Artifacts", "Libdl"] @@ -2177,9 +2439,9 @@ version = "0.11.31" [[deps.PGFPlotsX]] deps = ["ArgCheck", "Dates", "DefaultApplication", "DocStringExtensions", "MacroTools", "OrderedCollections", "Parameters", "Requires", "Tables"] -git-tree-sha1 = "7bc55854924ceb9842646bf1f00396d6646c0c55" +git-tree-sha1 = "e5df51ffc01f8771d94c8db2d164be1f6927849c" uuid = "8314cec4-20b6-5062-9cdb-752b83310925" -version = "1.6.1" +version = "1.6.2" [deps.PGFPlotsX.extensions] ColorsExt = "Colors" @@ -2207,9 +2469,9 @@ weakdeps = ["Requires", "TOML"] [[deps.Packing]] deps = ["GeometryBasics"] -git-tree-sha1 = "ec3edfe723df33528e085e632414499f26650501" +git-tree-sha1 = "bc5bf2ea3d5351edf285a06b0016788a121ce92c" uuid = "19eb6ba3-879d-56ad-ad62-d5c202156566" -version = "0.5.0" +version = "0.5.1" [[deps.PaddedViews]] deps = ["OffsetArrays"] @@ -2253,9 +2515,13 @@ uuid = "30392449-352a-5448-841d-b1acce4e97dc" version = "0.43.4+0" [[deps.Pkg]] -deps = ["Artifacts", "Dates", "Downloads", "FileWatching", "LibGit2", "Libdl", "Logging", "Markdown", "Printf", "REPL", "Random", "SHA", "Serialization", "TOML", "Tar", "UUIDs", "p7zip_jll"] +deps = ["Artifacts", "Dates", "Downloads", "FileWatching", "LibGit2", "Libdl", "Logging", "Markdown", "Printf", "Random", "SHA", "TOML", "Tar", "UUIDs", "p7zip_jll"] uuid = "44cfe95a-1eb2-52ea-b672-e2afdf69b78f" -version = "1.10.0" +version = "1.11.0" +weakdeps = ["REPL"] + + [deps.Pkg.extensions] + REPLExt = "REPL" [[deps.PkgVersion]] deps = ["Pkg"] @@ -2265,21 +2531,21 @@ version = "0.3.3" [[deps.PlotThemes]] deps = ["PlotUtils", "Statistics"] -git-tree-sha1 = "6e55c6841ce3411ccb3457ee52fc48cb698d6fb0" +git-tree-sha1 = "41031ef3a1be6f5bbbf3e8073f210556daeae5ca" uuid = "ccf2f8ad-2431-5c83-bf29-c5338b663b6a" -version = "3.2.0" +version = "3.3.0" [[deps.PlotUtils]] -deps = ["ColorSchemes", "Colors", "Dates", "PrecompileTools", "Printf", "Random", "Reexport", "Statistics"] -git-tree-sha1 = "7b1a9df27f072ac4c9c7cbe5efb198489258d1f5" +deps = ["ColorSchemes", "Colors", "Dates", "PrecompileTools", "Printf", "Random", "Reexport", "StableRNGs", "Statistics"] +git-tree-sha1 = "3ca9a356cd2e113c420f2c13bea19f8d3fb1cb18" uuid = "995b91a9-d308-5afd-9ec6-746e21dbc043" -version = "1.4.1" +version = "1.4.3" [[deps.Plots]] -deps = ["Base64", "Contour", "Dates", "Downloads", "FFMPEG", "FixedPointNumbers", "GR", "JLFzf", "JSON", "LaTeXStrings", "Latexify", "LinearAlgebra", "Measures", "NaNMath", "Pkg", "PlotThemes", "PlotUtils", "PrecompileTools", "Printf", "REPL", "Random", "RecipesBase", "RecipesPipeline", "Reexport", "RelocatableFolders", "Requires", "Scratch", "Showoff", "SparseArrays", "Statistics", "StatsBase", "UUIDs", "UnicodeFun", "UnitfulLatexify", "Unzip"] -git-tree-sha1 = "442e1e7ac27dd5ff8825c3fa62fbd1e86397974b" +deps = ["Base64", "Contour", "Dates", "Downloads", "FFMPEG", "FixedPointNumbers", "GR", "JLFzf", "JSON", "LaTeXStrings", "Latexify", "LinearAlgebra", "Measures", "NaNMath", "Pkg", "PlotThemes", "PlotUtils", "PrecompileTools", "Printf", "REPL", "Random", "RecipesBase", "RecipesPipeline", "Reexport", "RelocatableFolders", "Requires", "Scratch", "Showoff", "SparseArrays", "Statistics", "StatsBase", "TOML", "UUIDs", "UnicodeFun", "UnitfulLatexify", "Unzip"] +git-tree-sha1 = "dae01f8c2e069a683d3a6e17bbae5070ab94786f" uuid = "91a5bcdd-55d7-5caf-9e0b-520d859cae80" -version = "1.40.4" +version = "1.40.9" [deps.Plots.extensions] FileIOExt = "FileIO" @@ -2297,15 +2563,15 @@ version = "1.40.4" [[deps.Pluto]] deps = ["Base64", "Configurations", "Dates", "Downloads", "ExpressionExplorer", "FileWatching", "FuzzyCompletions", "HTTP", "HypertextLiteral", "InteractiveUtils", "Logging", "LoggingExtras", "MIMEs", "Malt", "Markdown", "MsgPack", "Pkg", "PlutoDependencyExplorer", "PrecompileSignatures", "PrecompileTools", "REPL", "RegistryInstances", "RelocatableFolders", "Scratch", "Sockets", "TOML", "Tables", "URIs", "UUIDs"] -git-tree-sha1 = "5e88cea5e54cb10216ad64eedd6897f9597a85b4" +git-tree-sha1 = "3d97d067ea3d04f51821ac86b0d04024fe6e4df8" uuid = "c3e4b0f8-55cb-11ea-2926-15256bba5781" -version = "0.19.41" +version = "0.20.3" [[deps.PlutoDependencyExplorer]] deps = ["ExpressionExplorer", "InteractiveUtils", "Markdown"] -git-tree-sha1 = "4bc5284f77d731196d3e97f23abb732ad6f2a6e4" +git-tree-sha1 = "592470bdf383cd34e88a21bbd7f1f7ffc52a21c6" uuid = "72656b73-756c-7461-726b-72656b6b696b" -version = "1.0.4" +version = "1.1.0" [[deps.Polyester]] deps = ["ArrayInterface", "BitTwiddlingConvenienceFunctions", "CPUSummary", "IfElse", "ManualMemory", "PolyesterWeave", "Static", "StaticArrayInterface", "StrideArraysCore", "ThreadingUtilities"] @@ -2325,10 +2591,22 @@ uuid = "647866c9-e3ac-4575-94e7-e3d426903924" version = "0.1.2" [[deps.Polynomials]] -deps = ["LinearAlgebra", "RecipesBase"] -git-tree-sha1 = "a14a99e430e42a105c898fcc7f212334bc7be887" +deps = ["LinearAlgebra", "OrderedCollections", "RecipesBase", "Requires", "Setfield", "SparseArrays"] +git-tree-sha1 = "adc25dbd4d13f148f3256b6d4743fe7e63a71c4a" uuid = "f27b6e38-b328-58d1-80ce-0feddd5e7a45" -version = "3.2.4" +version = "4.0.12" + + [deps.Polynomials.extensions] + PolynomialsChainRulesCoreExt = "ChainRulesCore" + PolynomialsFFTWExt = "FFTW" + PolynomialsMakieCoreExt = "MakieCore" + PolynomialsMutableArithmeticsExt = "MutableArithmetics" + + [deps.Polynomials.weakdeps] + ChainRulesCore = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4" + FFTW = "7a1cc6ca-52ef-59f5-83cd-3a7055c09341" + MakieCore = "20f20a25-4f0e-4fdf-b5d1-57303727442b" + MutableArithmetics = "d8a4904e-b15c-11e9-3269-09a3773c0cb0" [[deps.PooledArrays]] deps = ["DataAPI", "Future"] @@ -2376,19 +2654,14 @@ version = "0.2.0" [[deps.PrettyTables]] deps = ["Crayons", "LaTeXStrings", "Markdown", "PrecompileTools", "Printf", "Reexport", "StringManipulation", "Tables"] -git-tree-sha1 = "66b20dd35966a748321d3b2537c4584cf40387c7" +git-tree-sha1 = "1101cd475833706e4d0e7b122218257178f48f34" uuid = "08abe8d2-0d0c-5749-adfa-8a2ac140af0d" -version = "2.3.2" +version = "2.4.0" [[deps.Printf]] deps = ["Unicode"] uuid = "de0858da-6303-5e67-8744-51eddeeeb8d7" - -[[deps.ProgressBars]] -deps = ["Printf"] -git-tree-sha1 = "b437cdb0385ed38312d91d9c00c20f3798b30256" -uuid = "49802e3a-d2f1-5c88-81d8-b72133a6f568" -version = "1.5.1" +version = "1.11.0" [[deps.ProgressLogging]] deps = ["Logging", "SHA", "UUIDs"] @@ -2398,9 +2671,9 @@ version = "0.1.4" [[deps.ProgressMeter]] deps = ["Distributed", "Printf"] -git-tree-sha1 = "763a8ceb07833dd51bb9e3bbca372de32c0605ad" +git-tree-sha1 = "8f6bc219586aef8baf0ff9a5fe16ee9c70cb65e4" uuid = "92933f4c-e287-5a05-a399-4b506db050ca" -version = "1.10.0" +version = "1.10.2" [[deps.PtrArrays]] git-tree-sha1 = "77a42d78b6a92df47ab37e177b2deac405e1c88f" @@ -2409,27 +2682,45 @@ version = "1.2.1" [[deps.PythonCall]] deps = ["CondaPkg", "Dates", "Libdl", "MacroTools", "Markdown", "Pkg", "REPL", "Requires", "Serialization", "Tables", "UnsafePointers"] -git-tree-sha1 = "0fe6664f742903eab8929586af78e10a51b33577" +git-tree-sha1 = "06a778ec6d6e76b0c2fb661436a18bce853ec45f" uuid = "6099a3de-0909-46bc-b1f4-468b9a2dfc0d" -version = "0.9.19" +version = "0.9.23" [[deps.QOI]] deps = ["ColorTypes", "FileIO", "FixedPointNumbers"] -git-tree-sha1 = "18e8f4d1426e965c7b532ddd260599e1510d26ce" +git-tree-sha1 = "8b3fc30bc0390abdce15f8822c889f669baed73d" uuid = "4b34888f-f399-49d4-9bb3-47ed5cae4e65" -version = "1.0.0" +version = "1.0.1" [[deps.Qt6Base_jll]] deps = ["Artifacts", "CompilerSupportLibraries_jll", "Fontconfig_jll", "Glib_jll", "JLLWrappers", "Libdl", "Libglvnd_jll", "OpenSSL_jll", "Vulkan_Loader_jll", "Xorg_libSM_jll", "Xorg_libXext_jll", "Xorg_libXrender_jll", "Xorg_libxcb_jll", "Xorg_xcb_util_cursor_jll", "Xorg_xcb_util_image_jll", "Xorg_xcb_util_keysyms_jll", "Xorg_xcb_util_renderutil_jll", "Xorg_xcb_util_wm_jll", "Zlib_jll", "libinput_jll", "xkbcommon_jll"] -git-tree-sha1 = "37b7bb7aabf9a085e0044307e1717436117f2b3b" +git-tree-sha1 = "492601870742dcd38f233b23c3ec629628c1d724" uuid = "c0090381-4147-56d7-9ebc-da0b1113ec56" -version = "6.5.3+1" +version = "6.7.1+1" + +[[deps.Qt6Declarative_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl", "Qt6Base_jll", "Qt6ShaderTools_jll"] +git-tree-sha1 = "e5dd466bf2569fe08c91a2cc29c1003f4797ac3b" +uuid = "629bc702-f1f5-5709-abd5-49b8460ea067" +version = "6.7.1+2" + +[[deps.Qt6ShaderTools_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl", "Qt6Base_jll"] +git-tree-sha1 = "1a180aeced866700d4bebc3120ea1451201f16bc" +uuid = "ce943373-25bb-56aa-8eca-768745ed7b5a" +version = "6.7.1+1" + +[[deps.Qt6Wayland_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl", "Qt6Base_jll", "Qt6Declarative_jll"] +git-tree-sha1 = "729927532d48cf79f49070341e1d918a65aba6b0" +uuid = "e99dba38-086e-5de3-a5b1-6e4c66e897c3" +version = "6.7.1+1" [[deps.QuadGK]] deps = ["DataStructures", "LinearAlgebra"] -git-tree-sha1 = "1d587203cf851a51bf1ea31ad7ff89eff8d625ea" +git-tree-sha1 = "cda3b045cf9ef07a08ad46731f5a3165e56cf3da" uuid = "1fd47b50-473d-5c70-9696-f719f8f3bcdc" -version = "2.11.0" +version = "2.11.1" [deps.QuadGK.extensions] QuadGKEnzymeExt = "Enzyme" @@ -2444,12 +2735,14 @@ uuid = "94ee1d12-ae83-5a48-8b1c-48b8ff168ae0" version = "0.7.6" [[deps.REPL]] -deps = ["InteractiveUtils", "Markdown", "Sockets", "Unicode"] +deps = ["InteractiveUtils", "Markdown", "Sockets", "StyledStrings", "Unicode"] uuid = "3fa0cd96-eef1-5676-8a61-b3b8758bbffb" +version = "1.11.0" [[deps.Random]] deps = ["SHA"] uuid = "9a3f8284-a2c9-5f02-9a11-845980a1fd5c" +version = "1.11.0" [[deps.Random123]] deps = ["Random", "RandomNumbers"] @@ -2498,9 +2791,9 @@ version = "0.6.12" [[deps.RecursiveArrayTools]] deps = ["Adapt", "ArrayInterface", "DocStringExtensions", "GPUArraysCore", "IteratorInterfaceExtensions", "LinearAlgebra", "RecipesBase", "StaticArraysCore", "Statistics", "SymbolicIndexingInterface", "Tables"] -git-tree-sha1 = "b034171b93aebc81b3e1890a036d13a9c4a9e3e0" +git-tree-sha1 = "32f824db4e5bab64e25a12b22483a30a6b813d08" uuid = "731186ca-8d62-57ce-b412-fbd966d074cd" -version = "3.27.0" +version = "3.27.4" [deps.RecursiveArrayTools.extensions] RecursiveArrayToolsFastBroadcastExt = "FastBroadcast" @@ -2509,6 +2802,7 @@ version = "3.27.0" RecursiveArrayToolsMonteCarloMeasurementsExt = "MonteCarloMeasurements" RecursiveArrayToolsReverseDiffExt = ["ReverseDiff", "Zygote"] RecursiveArrayToolsSparseArraysExt = ["SparseArrays"] + RecursiveArrayToolsStructArraysExt = "StructArrays" RecursiveArrayToolsTrackerExt = "Tracker" RecursiveArrayToolsZygoteExt = "Zygote" @@ -2519,6 +2813,7 @@ version = "3.27.0" MonteCarloMeasurements = "0987c9cc-fe09-11e8-30f0-b96dd679fdca" ReverseDiff = "37e2e3b7-166d-5795-8a7a-e32c996b4267" SparseArrays = "2f01184e-e22b-5df5-ae63-d93ebab69eaf" + StructArrays = "09ab397b-f2b6-538f-b94a-2f83cf4a842a" Tracker = "9f7883ad-71c0-57eb-9f7f-b5c9e6d3789c" Zygote = "e88e6eb3-aa80-5325-afca-941959d7151f" @@ -2602,9 +2897,9 @@ version = "0.7.0" [[deps.SIMD]] deps = ["PrecompileTools"] -git-tree-sha1 = "2803cab51702db743f3fda07dd1745aadfbf43bd" +git-tree-sha1 = "52af86e35dd1b177d051b12681e1c581f53c281b" uuid = "fdea26ae-647d-5447-a871-4b548cad5224" -version = "3.5.0" +version = "3.7.0" [[deps.SIMDTypes]] git-tree-sha1 = "330289636fb8107c5f32088d2741e9fd7a061a5c" @@ -2618,10 +2913,10 @@ uuid = "476501e8-09a2-5ece-8869-fb82de89a1fa" version = "0.6.43" [[deps.SciMLBase]] -deps = ["ADTypes", "Accessors", "ArrayInterface", "CommonSolve", "ConstructionBase", "Distributed", "DocStringExtensions", "EnumX", "Expronicon", "FunctionWrappersWrappers", "IteratorInterfaceExtensions", "LinearAlgebra", "Logging", "Markdown", "PrecompileTools", "Preferences", "Printf", "RecipesBase", "RecursiveArrayTools", "Reexport", "RuntimeGeneratedFunctions", "SciMLOperators", "SciMLStructures", "StaticArraysCore", "Statistics", "SymbolicIndexingInterface", "Tables"] -git-tree-sha1 = "c96f81c3e98d5e2f0848fb42aba4383d772c3bb7" +deps = ["ADTypes", "Accessors", "ArrayInterface", "CommonSolve", "ConstructionBase", "Distributed", "DocStringExtensions", "EnumX", "Expronicon", "FunctionWrappersWrappers", "IteratorInterfaceExtensions", "LinearAlgebra", "Logging", "Markdown", "PrecompileTools", "Preferences", "Printf", "RecipesBase", "RecursiveArrayTools", "Reexport", "RuntimeGeneratedFunctions", "SciMLOperators", "SciMLStructures", "StaticArraysCore", "Statistics", "SymbolicIndexingInterface"] +git-tree-sha1 = "899468ac3c2fa6b87151cb3fa29367329017d365" uuid = "0bca4576-84f4-4d90-8ffe-ffa030f20462" -version = "2.53.1" +version = "2.66.0" [deps.SciMLBase.extensions] SciMLBaseChainRulesCoreExt = "ChainRulesCore" @@ -2642,11 +2937,17 @@ version = "2.53.1" RCall = "6f49c342-dc21-5d91-9882-a32aef131414" Zygote = "e88e6eb3-aa80-5325-afca-941959d7151f" +[[deps.SciMLJacobianOperators]] +deps = ["ADTypes", "ArrayInterface", "ConcreteStructs", "ConstructionBase", "DifferentiationInterface", "FastClosures", "LinearAlgebra", "SciMLBase", "SciMLOperators"] +git-tree-sha1 = "f66048bb969e67bd7d1bdd03cd0b81219642bbd0" +uuid = "19f34311-ddf3-4b8b-af20-060888a46c0e" +version = "0.1.1" + [[deps.SciMLOperators]] deps = ["Accessors", "ArrayInterface", "DocStringExtensions", "LinearAlgebra", "MacroTools"] -git-tree-sha1 = "e39c5f217f9aca640c8e27ab21acf557a3967db5" +git-tree-sha1 = "6149620767866d4b0f0f7028639b6e661b6a1e44" uuid = "c0aeaf25-5076-4817-a8d5-81caf7dfa961" -version = "0.3.10" +version = "0.3.12" weakdeps = ["SparseArrays", "StaticArraysCore"] [deps.SciMLOperators.extensions] @@ -2655,9 +2956,9 @@ weakdeps = ["SparseArrays", "StaticArraysCore"] [[deps.SciMLStructures]] deps = ["ArrayInterface"] -git-tree-sha1 = "25514a6f200219cd1073e4ff23a6324e4a7efe64" +git-tree-sha1 = "0444a37a25fab98adbd90baa806ee492a3af133a" uuid = "53ae85a6-f571-4167-b2af-e1d143709226" -version = "1.5.0" +version = "1.6.1" [[deps.ScientificTypesBase]] git-tree-sha1 = "a8e18eb383b5ecf1b5e6fc237eb39255044fd92b" @@ -2672,12 +2973,13 @@ version = "1.2.1" [[deps.SentinelArrays]] deps = ["Dates", "Random"] -git-tree-sha1 = "ff11acffdb082493657550959d4feb4b6149e73a" +git-tree-sha1 = "d0553ce4031a081cc42387a9b9c8441b7d99f32d" uuid = "91c51154-3ec4-41a3-a24f-3f23e20d615c" -version = "1.4.5" +version = "1.4.7" [[deps.Serialization]] uuid = "9e88b42a-f829-5b0c-bbe9-9e923198166b" +version = "1.11.0" [[deps.Setfield]] deps = ["ConstructionBase", "Future", "MacroTools", "StaticArraysCore"] @@ -2694,6 +2996,7 @@ version = "0.4.1" [[deps.SharedArrays]] deps = ["Distributed", "Mmap", "Random", "Serialization"] uuid = "1a1011a3-84de-559e-8e89-a11a2f7dc383" +version = "1.11.0" [[deps.ShowCases]] git-tree-sha1 = "7f534ad62ab2bd48591bdeac81994ea8c445e4a5" @@ -2713,31 +3016,27 @@ uuid = "73760f76-fbc4-59ce-8f25-708e95d2df96" version = "0.4.0" [[deps.SimpleBufferStream]] -git-tree-sha1 = "874e8867b33a00e784c8a7e4b60afe9e037b74e1" +git-tree-sha1 = "f305871d2f381d21527c770d4788c06c097c9bc1" uuid = "777ac1f9-54b0-4bf8-805c-2214025038e7" -version = "1.1.0" +version = "1.2.0" [[deps.SimpleNonlinearSolve]] -deps = ["ADTypes", "ArrayInterface", "ConcreteStructs", "DiffEqBase", "DiffResults", "FastClosures", "FiniteDiff", "ForwardDiff", "LinearAlgebra", "MaybeInplace", "PrecompileTools", "Reexport", "SciMLBase", "StaticArraysCore"] -git-tree-sha1 = "c020028bb22a2f23cbd88cb92cf47cbb8c98513f" +deps = ["ADTypes", "ArrayInterface", "BracketingNonlinearSolve", "CommonSolve", "ConcreteStructs", "DifferentiationInterface", "FastClosures", "FiniteDiff", "ForwardDiff", "LineSearch", "LinearAlgebra", "MaybeInplace", "NonlinearSolveBase", "PrecompileTools", "Reexport", "SciMLBase", "Setfield", "StaticArraysCore"] +git-tree-sha1 = "f7e2042e0b68c6bb19a0a1594839792737f51d84" uuid = "727e6d20-b764-4bd8-a329-72de5adea6c7" -version = "1.8.0" +version = "2.0.0" [deps.SimpleNonlinearSolve.extensions] SimpleNonlinearSolveChainRulesCoreExt = "ChainRulesCore" - SimpleNonlinearSolvePolyesterForwardDiffExt = "PolyesterForwardDiff" + SimpleNonlinearSolveDiffEqBaseExt = "DiffEqBase" SimpleNonlinearSolveReverseDiffExt = "ReverseDiff" - SimpleNonlinearSolveStaticArraysExt = "StaticArrays" SimpleNonlinearSolveTrackerExt = "Tracker" - SimpleNonlinearSolveZygoteExt = "Zygote" [deps.SimpleNonlinearSolve.weakdeps] ChainRulesCore = "d360d2e6-b24c-11e9-a2a3-2a2ae2dbcce4" - PolyesterForwardDiff = "98d1487c-24ca-40b6-b7ab-df2af84e126b" + DiffEqBase = "2b5f629d-d688-5b77-993f-72d75c75574e" ReverseDiff = "37e2e3b7-166d-5795-8a7a-e32c996b4267" - StaticArrays = "90137ffa-7385-5640-81b9-e52037218182" Tracker = "9f7883ad-71c0-57eb-9f7f-b5c9e6d3789c" - Zygote = "e88e6eb3-aa80-5325-afca-941959d7151f" [[deps.SimpleTraits]] deps = ["InteractiveUtils", "MacroTools"] @@ -2759,6 +3058,7 @@ version = "0.1.3" [[deps.Sockets]] uuid = "6462fe0b-24de-5631-8697-dd941f90decc" +version = "1.11.0" [[deps.SortingAlgorithms]] deps = ["DataStructures"] @@ -2769,27 +3069,7 @@ version = "1.2.1" [[deps.SparseArrays]] deps = ["Libdl", "LinearAlgebra", "Random", "Serialization", "SuiteSparse_jll"] uuid = "2f01184e-e22b-5df5-ae63-d93ebab69eaf" -version = "1.10.0" - -[[deps.SparseDiffTools]] -deps = ["ADTypes", "Adapt", "ArrayInterface", "Compat", "DataStructures", "FiniteDiff", "ForwardDiff", "Graphs", "LinearAlgebra", "PackageExtensionCompat", "Random", "Reexport", "SciMLOperators", "Setfield", "SparseArrays", "StaticArrayInterface", "StaticArrays", "Tricks", "UnPack", "VertexSafeGraphs"] -git-tree-sha1 = "cce98ad7c896e52bb0eded174f02fc2a29c38477" -uuid = "47a9eef4-7e08-11e9-0b38-333d64bd3804" -version = "2.18.0" - - [deps.SparseDiffTools.extensions] - SparseDiffToolsEnzymeExt = "Enzyme" - SparseDiffToolsPolyesterExt = "Polyester" - SparseDiffToolsPolyesterForwardDiffExt = "PolyesterForwardDiff" - SparseDiffToolsSymbolicsExt = "Symbolics" - SparseDiffToolsZygoteExt = "Zygote" - - [deps.SparseDiffTools.weakdeps] - Enzyme = "7da242da-08ed-463a-9acd-ee780be4f1d9" - Polyester = "f517fe37-dbe3-4b94-8317-1923a5111588" - PolyesterForwardDiff = "98d1487c-24ca-40b6-b7ab-df2af84e126b" - Symbolics = "0c5d862f-8b57-4792-8d23-62f2024744c7" - Zygote = "e88e6eb3-aa80-5325-afca-941959d7151f" +version = "1.11.0" [[deps.SparseInverseSubset]] deps = ["LinearAlgebra", "SparseArrays", "SuiteSparse"] @@ -2797,6 +3077,16 @@ git-tree-sha1 = "52962839426b75b3021296f7df242e40ecfc0852" uuid = "dc90abb0-5640-4711-901d-7e5b23a2fada" version = "0.1.2" +[[deps.SparseMatrixColorings]] +deps = ["ADTypes", "DataStructures", "DocStringExtensions", "LinearAlgebra", "Random", "SparseArrays"] +git-tree-sha1 = "76b44c879661552d64f382acf66faa29ab56b3d9" +uuid = "0a514795-09f3-496d-8182-132a7b665d35" +version = "0.4.10" +weakdeps = ["Colors"] + + [deps.SparseMatrixColorings.extensions] + SparseMatrixColoringsColorsExt = "Colors" + [[deps.Sparspak]] deps = ["Libdl", "LinearAlgebra", "Logging", "OffsetArrays", "Printf", "SparseArrays", "Test"] git-tree-sha1 = "342cf4b449c299d8d1ceaf00b7a49f4fbc7940e7" @@ -2805,9 +3095,9 @@ version = "0.3.9" [[deps.SpecialFunctions]] deps = ["IrrationalConstants", "LogExpFunctions", "OpenLibm_jll", "OpenSpecFun_jll"] -git-tree-sha1 = "e2cfc4012a19088254b3950b85c3c1d8882d864d" +git-tree-sha1 = "2f5d4697f21388cbe1ff299430dd169ef97d7e14" uuid = "276daf66-3868-5448-9aa4-cd146d93841b" -version = "2.3.1" +version = "2.4.0" weakdeps = ["ChainRulesCore"] [deps.SpecialFunctions.extensions] @@ -2819,6 +3109,12 @@ git-tree-sha1 = "e08a62abc517eb79667d0a29dc08a3b589516bb5" uuid = "171d559e-b47b-412a-8079-5efa626c420e" version = "0.1.15" +[[deps.StableRNGs]] +deps = ["Random"] +git-tree-sha1 = "83e6cce8324d49dfaf9ef059227f91ed4441a8e5" +uuid = "860ef19b-820b-49d6-a774-d7a799459cd3" +version = "1.0.2" + [[deps.StackViews]] deps = ["OffsetArrays"] git-tree-sha1 = "46e589465204cd0c08b4bd97385e4fa79a0c770c" @@ -2826,10 +3122,10 @@ uuid = "cae243ae-269e-4f55-b966-ac2d0dc13c15" version = "0.1.1" [[deps.Static]] -deps = ["IfElse"] -git-tree-sha1 = "d2fdac9ff3906e27f7a618d47b676941baa6c80c" +deps = ["CommonWorldInvalidations", "IfElse", "PrecompileTools"] +git-tree-sha1 = "87d51a3ee9a4b0d2fe054bdd3fc2436258db2603" uuid = "aedffcd0-7271-4cad-89d0-dc628f76c6d3" -version = "0.8.10" +version = "1.1.1" [[deps.StaticArrayInterface]] deps = ["ArrayInterface", "Compat", "IfElse", "LinearAlgebra", "PrecompileTools", "Static"] @@ -2844,9 +3140,9 @@ weakdeps = ["OffsetArrays", "StaticArrays"] [[deps.StaticArrays]] deps = ["LinearAlgebra", "PrecompileTools", "Random", "StaticArraysCore"] -git-tree-sha1 = "eeafab08ae20c62c44c8399ccb9354a04b80db50" +git-tree-sha1 = "777657803913ffc7e8cc20f0fd04b634f871af8f" uuid = "90137ffa-7385-5640-81b9-e52037218182" -version = "1.9.7" +version = "1.9.8" weakdeps = ["ChainRulesCore", "Statistics"] [deps.StaticArrays.extensions] @@ -2865,9 +3161,14 @@ uuid = "64bff920-2084-43da-a3e6-9bb72801c0c9" version = "3.4.0" [[deps.Statistics]] -deps = ["LinearAlgebra", "SparseArrays"] +deps = ["LinearAlgebra"] +git-tree-sha1 = "ae3bb1eb3bba077cd276bc5cfc337cc65c3075c0" uuid = "10745b16-79ce-11e8-11f9-7d13ad32a3b2" -version = "1.10.0" +version = "1.11.1" +weakdeps = ["SparseArrays"] + + [deps.Statistics.extensions] + SparseArraysExt = ["SparseArrays"] [[deps.StatsAPI]] deps = ["LinearAlgebra"] @@ -2900,9 +3201,9 @@ version = "0.5.7" [[deps.StringManipulation]] deps = ["PrecompileTools"] -git-tree-sha1 = "a04cabe79c5f01f4d723cc6704070ada0b9d46d5" +git-tree-sha1 = "a6b1675a536c5ad1a60e5a5153e1fee12eb146e3" uuid = "892a3eda-7b42-436c-8928-eab12a02cf0e" -version = "0.3.4" +version = "0.4.0" [[deps.StructArrays]] deps = ["ConstructionBase", "DataAPI", "Tables"] @@ -2923,6 +3224,10 @@ git-tree-sha1 = "159331b30e94d7b11379037feeb9b690950cace8" uuid = "856f2bd8-1eba-4b0a-8007-ebc267875bd4" version = "1.11.0" +[[deps.StyledStrings]] +uuid = "f489334b-da3d-4c2e-b8f0-e476e12c162b" +version = "1.11.0" + [[deps.SuiteSparse]] deps = ["Libdl", "LinearAlgebra", "Serialization", "SparseArrays"] uuid = "4607b0f0-06f3-5cda-b6b1-a6196a1729e9" @@ -2930,25 +3235,27 @@ uuid = "4607b0f0-06f3-5cda-b6b1-a6196a1729e9" [[deps.SuiteSparse_jll]] deps = ["Artifacts", "Libdl", "libblastrampoline_jll"] uuid = "bea87d4a-7f5b-5778-9afe-8cc45184846c" -version = "7.2.1+1" +version = "7.7.0+0" [[deps.SymbolicIndexingInterface]] deps = ["Accessors", "ArrayInterface", "RuntimeGeneratedFunctions", "StaticArraysCore"] -git-tree-sha1 = "988e04b34a4c3b824fb656f542473df99a4f610d" +git-tree-sha1 = "8db233b54917e474165d582bef2244fa040e0a56" uuid = "2efcf032-c050-4f8e-a9bb-153293bab1f5" -version = "0.3.30" +version = "0.3.36" [[deps.SymbolicRegression]] -deps = ["Compat", "Dates", "Distributed", "DynamicExpressions", "DynamicQuantities", "LineSearches", "LossFunctions", "MLJModelInterface", "MacroTools", "Optim", "PackageExtensionCompat", "Pkg", "PrecompileTools", "Printf", "ProgressBars", "Random", "Reexport", "SpecialFunctions", "StatsBase", "TOML"] -git-tree-sha1 = "5bca1e4be8f21261e32ad4282b9f1710b095ca3f" +deps = ["ADTypes", "Compat", "ConstructionBase", "Dates", "DifferentiationInterface", "DispatchDoctor", "Distributed", "DynamicExpressions", "DynamicQuantities", "LineSearches", "Logging", "LossFunctions", "MLJModelInterface", "MacroTools", "Optim", "Pkg", "PrecompileTools", "Printf", "ProgressMeter", "Random", "Reexport", "SpecialFunctions", "StatsBase", "StyledStrings", "TOML"] +git-tree-sha1 = "bd8e4c70e4b2786b3114544ddf46b15cc1076687" uuid = "8254be44-1295-4e6a-a16d-46603ac705cb" -version = "0.24.4" +version = "1.1.0" [deps.SymbolicRegression.extensions] + SymbolicRegressionEnzymeExt = "Enzyme" SymbolicRegressionJSON3Ext = "JSON3" SymbolicRegressionSymbolicUtilsExt = "SymbolicUtils" [deps.SymbolicRegression.weakdeps] + Enzyme = "7da242da-08ed-463a-9acd-ee780be4f1d9" JSON3 = "0f8b85d8-7281-11e9-16c2-39a750bddbf1" SymbolicUtils = "d1185830-fcd6-423d-90d6-eec64667417b" @@ -2983,6 +3290,12 @@ version = "0.1.1" [[deps.Test]] deps = ["InteractiveUtils", "Logging", "Random", "Serialization"] uuid = "8dfed614-e22c-5e08-85e1-65c5234f0b40" +version = "1.11.0" + +[[deps.TestItems]] +git-tree-sha1 = "42fd9023fef18b9b78c8343a4e2f3813ffbcefcb" +uuid = "1c621080-faea-4a02-84b6-bbd5e436b8fe" +version = "1.0.0" [[deps.ThreadingUtilities]] deps = ["ManualMemory"] @@ -2992,9 +3305,9 @@ version = "0.5.2" [[deps.TiffImages]] deps = ["ColorTypes", "DataStructures", "DocStringExtensions", "FileIO", "FixedPointNumbers", "IndirectArrays", "Inflate", "Mmap", "OffsetArrays", "PkgVersion", "ProgressMeter", "SIMD", "UUIDs"] -git-tree-sha1 = "bc7fd5c91041f44636b2c134041f7e5263ce58ae" +git-tree-sha1 = "38f139cc4abf345dd4f22286ec000728d5e8e097" uuid = "731e570b-9d59-4bfa-96dc-6df516fadf69" -version = "0.10.0" +version = "0.10.2" [[deps.TiledIteration]] deps = ["OffsetArrays", "StaticArrayInterface"] @@ -3004,26 +3317,23 @@ version = "0.5.0" [[deps.TimerOutputs]] deps = ["ExprTools", "Printf"] -git-tree-sha1 = "5a13ae8a41237cff5ecf34f73eb1b8f42fff6531" +git-tree-sha1 = "d7298ebdfa1654583468a487e8e83fae9d72dac3" uuid = "a759f4b9-e2f1-59dc-863e-4aeb61b1ea8f" -version = "0.5.24" +version = "0.5.26" [[deps.TranscodingStreams]] -git-tree-sha1 = "d73336d81cafdc277ff45558bb7eaa2b04a8e472" +git-tree-sha1 = "0c45878dcfdcfa8480052b6ab162cdd138781742" uuid = "3bb67fe8-82b1-5028-8e26-92a6c54297fa" -version = "0.10.10" -weakdeps = ["Random", "Test"] - - [deps.TranscodingStreams.extensions] - TestExt = ["Test", "Random"] +version = "0.11.3" [[deps.Transducers]] -deps = ["Accessors", "Adapt", "ArgCheck", "BangBang", "Baselet", "CompositionsBase", "ConstructionBase", "DefineSingletons", "Distributed", "InitialValues", "Logging", "Markdown", "MicroCollections", "Requires", "SplittablesBase", "Tables"] -git-tree-sha1 = "5215a069867476fc8e3469602006b9670e68da23" +deps = ["Accessors", "ArgCheck", "BangBang", "Baselet", "CompositionsBase", "ConstructionBase", "DefineSingletons", "Distributed", "InitialValues", "Logging", "Markdown", "MicroCollections", "Requires", "SplittablesBase", "Tables"] +git-tree-sha1 = "7deeab4ff96b85c5f72c824cae53a1398da3d1cb" uuid = "28d57a85-8fef-5791-bfe6-a80928e7c999" -version = "0.4.82" +version = "0.4.84" [deps.Transducers.extensions] + TransducersAdaptExt = "Adapt" TransducersBlockArraysExt = "BlockArrays" TransducersDataFramesExt = "DataFrames" TransducersLazyArraysExt = "LazyArrays" @@ -3031,6 +3341,7 @@ version = "0.4.82" TransducersReferenceablesExt = "Referenceables" [deps.Transducers.weakdeps] + Adapt = "79e6a3ab-5dfb-504d-930d-738a2a938a0e" BlockArrays = "8e7c35d0-a365-5155-bbbb-fb81a777f24e" DataFrames = "a93c6f00-e57d-5684-b7b6-d8193f3e46c0" LazyArrays = "5078a376-72f3-5289-bfd5-ec5146d43c02" @@ -3085,6 +3396,7 @@ version = "1.5.1" [[deps.UUIDs]] deps = ["Random", "SHA"] uuid = "cf7118a7-6976-5b1a-9a39-7adc72f591a4" +version = "1.11.0" [[deps.UnPack]] git-tree-sha1 = "387c1f73762231e86e0c9c5443ce3b4a0a9a0c2b" @@ -3093,6 +3405,7 @@ version = "1.0.2" [[deps.Unicode]] uuid = "4ec0a83e-493e-50e2-b9ac-8f72acf5a8f5" +version = "1.11.0" [[deps.UnicodeFun]] deps = ["REPL"] @@ -3102,9 +3415,9 @@ version = "0.4.1" [[deps.Unitful]] deps = ["Dates", "LinearAlgebra", "Random"] -git-tree-sha1 = "d95fe458f26209c66a187b1114df96fd70839efd" +git-tree-sha1 = "01915bfcd62be15329c9a07235447a89d588327c" uuid = "1986cc42-f94f-5a68-af5c-568840ba703d" -version = "1.21.0" +version = "1.21.1" weakdeps = ["ConstructionBase", "InverseFunctions"] [deps.Unitful.extensions] @@ -3124,9 +3437,9 @@ version = "0.2.1" [[deps.UnsafeAtomicsLLVM]] deps = ["LLVM", "UnsafeAtomics"] -git-tree-sha1 = "bf2c553f25e954a9b38c9c0593a59bb13113f9e5" +git-tree-sha1 = "de4287a6569bcf3a8d6201d387991a8dda25c954" uuid = "d80eeb9a-aca5-4d75-85e5-170c8b632249" -version = "0.1.5" +version = "0.2.2" [[deps.UnsafePointers]] git-tree-sha1 = "c81331b3b2e60a982be57c046ec91f599ede674a" @@ -3138,17 +3451,17 @@ git-tree-sha1 = "ca0969166a028236229f63514992fc073799bb78" uuid = "41fe7b60-77ed-43a1-b4f0-825fd5a5650d" version = "0.2.0" +[[deps.VectorInterface]] +deps = ["LinearAlgebra"] +git-tree-sha1 = "cea8abaa6e43f72f97a09cf95b80c9eb53ff75cf" +uuid = "409d34a3-91d5-4945-b6ec-7529ddf182d8" +version = "0.4.9" + [[deps.VectorizationBase]] deps = ["ArrayInterface", "CPUSummary", "HostCPUFeatures", "IfElse", "LayoutPointers", "Libdl", "LinearAlgebra", "SIMDTypes", "Static", "StaticArrayInterface"] -git-tree-sha1 = "e7f5b81c65eb858bed630fe006837b935518aca5" +git-tree-sha1 = "4ab62a49f1d8d9548a1c8d1a75e5f55cf196f64e" uuid = "3d5dd08c-fd9d-11e8-17fa-ed2836048c2f" -version = "0.21.70" - -[[deps.VertexSafeGraphs]] -deps = ["Graphs"] -git-tree-sha1 = "8351f8d73d7e880bfc042a8b6922684ebeafb35c" -uuid = "19fa3120-7c27-5ec5-8db8-b0b0aa330d6f" -version = "0.2.0" +version = "0.21.71" [[deps.Vulkan_Loader_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Wayland_jll", "Xorg_libX11_jll", "Xorg_libXrandr_jll", "xkbcommon_jll"] @@ -3176,21 +3489,21 @@ version = "1.0.0" [[deps.XML2_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Libiconv_jll", "Zlib_jll"] -git-tree-sha1 = "1165b0443d0eca63ac1e32b8c0eb69ed2f4f8127" +git-tree-sha1 = "a2fccc6559132927d4c5dc183e3e01048c6dcbd6" uuid = "02c8fc9c-b97f-50b9-bbe4-9be30ff0a78a" -version = "2.13.3+0" +version = "2.13.5+0" [[deps.XSLT_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Libgcrypt_jll", "Libgpg_error_jll", "Libiconv_jll", "XML2_jll", "Zlib_jll"] -git-tree-sha1 = "a54ee957f4c86b526460a720dbc882fa5edcbefc" +git-tree-sha1 = "7d1671acbe47ac88e981868a078bd6b4e27c5191" uuid = "aed1982a-8fda-507f-9586-7b0439959a61" -version = "1.1.41+0" +version = "1.1.42+0" [[deps.XZ_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "ac88fb95ae6447c8dda6a5503f3bafd496ae8632" +git-tree-sha1 = "15e637a697345f6743674f1322beefbc5dcd5cfc" uuid = "ffd25f8a-64ca-5728-b0f7-c24cf3aae800" -version = "5.4.6+0" +version = "5.6.3+0" [[deps.Xorg_libICE_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] @@ -3206,15 +3519,15 @@ version = "1.2.4+0" [[deps.Xorg_libX11_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Xorg_libxcb_jll", "Xorg_xtrans_jll"] -git-tree-sha1 = "afead5aba5aa507ad5a3bf01f58f82c8d1403495" +git-tree-sha1 = "9dafcee1d24c4f024e7edc92603cedba72118283" uuid = "4f6342f7-b3d2-589e-9d20-edeb45f2b2bc" -version = "1.8.6+0" +version = "1.8.6+1" [[deps.Xorg_libXau_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "6035850dcc70518ca32f012e46015b9beeda49d8" +git-tree-sha1 = "2b0e27d52ec9d8d483e2ca0b72b3cb1a8df5c27a" uuid = "0c0b7dd1-d40b-584c-a123-a41640f87eec" -version = "1.0.11+0" +version = "1.0.11+1" [[deps.Xorg_libXcursor_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg", "Xorg_libXfixes_jll", "Xorg_libXrender_jll"] @@ -3224,15 +3537,15 @@ version = "1.2.0+4" [[deps.Xorg_libXdmcp_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "34d526d318358a859d7de23da945578e8e8727b7" +git-tree-sha1 = "02054ee01980c90297412e4c809c8694d7323af3" uuid = "a3789734-cfe1-5b06-b2d0-1dd0d9d62d05" -version = "1.1.4+0" +version = "1.1.4+1" [[deps.Xorg_libXext_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Xorg_libX11_jll"] -git-tree-sha1 = "d2d1a5c49fae4ba39983f63de6afcbea47194e85" +git-tree-sha1 = "d7155fea91a4123ef59f42c4afb5ab3b4ca95058" uuid = "1082639a-0dae-5f34-9b06-72781eeb8cb3" -version = "1.3.6+0" +version = "1.3.6+1" [[deps.Xorg_libXfixes_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg", "Xorg_libX11_jll"] @@ -3266,15 +3579,15 @@ version = "0.9.11+0" [[deps.Xorg_libpthread_stubs_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "8fdda4c692503d44d04a0603d9ac0982054635f9" +git-tree-sha1 = "fee57a273563e273f0f53275101cd41a8153517a" uuid = "14d82f49-176c-5ed1-bb49-ad3f5cbd8c74" -version = "0.1.1+0" +version = "0.1.1+1" [[deps.Xorg_libxcb_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "XSLT_jll", "Xorg_libXau_jll", "Xorg_libXdmcp_jll", "Xorg_libpthread_stubs_jll"] -git-tree-sha1 = "bcd466676fef0878338c61e655629fa7bbc69d8e" +git-tree-sha1 = "1a74296303b6524a0472a8cb12d3d87a78eb3612" uuid = "c7cfdc94-dc32-55de-ac96-5a1b8d977c5b" -version = "1.17.0+0" +version = "1.17.0+1" [[deps.Xorg_libxkbfile_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Xorg_libX11_jll"] @@ -3332,15 +3645,14 @@ version = "2.39.0+0" [[deps.Xorg_xtrans_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "e92a1a012a10506618f10b7047e478403a046c77" +git-tree-sha1 = "b9ead2d2bdb27330545eb14234a2e300da61232e" uuid = "c5fb5394-a638-5e4d-96e5-b29de1b5cf10" -version = "1.5.0+0" +version = "1.5.0+1" [[deps.ZernikePolynomials]] -deps = ["Test"] -git-tree-sha1 = "8ecba00c1a2ff61bf386b1c295b755aa5a6669e6" +git-tree-sha1 = "2dd6619de48f7b79b51d1651a63f2a4c4b27e6b5" uuid = "e462d300-c971-11e9-30f1-fb93b1f8f73a" -version = "0.1.0" +version = "1.0.0" [[deps.ZipFile]] deps = ["Libdl", "Printf", "Zlib_jll"] @@ -3355,15 +3667,15 @@ version = "1.2.13+1" [[deps.Zstd_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "e678132f07ddb5bfa46857f0d7620fb9be675d3b" +git-tree-sha1 = "555d1076590a6cc2fdee2ef1469451f872d8b41b" uuid = "3161d3a3-bdf6-5164-811a-617609db77b4" -version = "1.5.6+0" +version = "1.5.6+1" [[deps.Zygote]] deps = ["AbstractFFTs", "ChainRules", "ChainRulesCore", "DiffRules", "Distributed", "FillArrays", "ForwardDiff", "GPUArrays", "GPUArraysCore", "IRTools", "InteractiveUtils", "LinearAlgebra", "LogExpFunctions", "MacroTools", "NaNMath", "PrecompileTools", "Random", "Requires", "SparseArrays", "SpecialFunctions", "Statistics", "ZygoteRules"] -git-tree-sha1 = "4ddb4470e47b0094c93055a3bcae799165cc68f1" +git-tree-sha1 = "c7dc3148a64d1cd3768c29b3db5972d1c302661b" uuid = "e88e6eb3-aa80-5325-afca-941959d7151f" -version = "0.6.69" +version = "0.6.73" [deps.Zygote.extensions] ZygoteColorsExt = "Colors" @@ -3383,9 +3695,15 @@ version = "0.2.5" [[deps.cuDNN]] deps = ["CEnum", "CUDA", "CUDA_Runtime_Discovery", "CUDNN_jll"] -git-tree-sha1 = "1f6a185a8da9bbbc20134b7b935981f70c9b26ad" +git-tree-sha1 = "4b3ac62501ca73263eaa0d034c772f13c647fba6" uuid = "02a925ec-e4fe-4b08-9a7e-0d78e3d38ccd" -version = "1.3.1" +version = "1.4.0" + +[[deps.demumble_jll]] +deps = ["Artifacts", "JLLWrappers", "Libdl"] +git-tree-sha1 = "6498e3581023f8e530f34760d18f75a69e3a4ea8" +uuid = "1e29f10c-031c-5a83-9565-69cddfc27673" +version = "1.3.0+0" [[deps.eudev_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg", "gperf_jll"] @@ -3395,15 +3713,15 @@ version = "3.2.9+0" [[deps.fzf_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] -git-tree-sha1 = "936081b536ae4aa65415d869287d43ef3cb576b2" +git-tree-sha1 = "6e50f145003024df4f5cb96c7fce79466741d601" uuid = "214eeab7-80f7-51ab-84ad-2988db7cef09" -version = "0.53.0+0" +version = "0.56.3+0" [[deps.gperf_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] -git-tree-sha1 = "3516a5630f741c9eecb3720b1ec9d8edc3ecc033" +git-tree-sha1 = "0ba42241cb6809f1a278d0bcb976e0483c3f1f2d" uuid = "1a1c6b14-54f6-533d-8383-74cd7377aa70" -version = "3.1.1+0" +version = "3.1.1+1" [[deps.isoband_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Pkg"] @@ -3460,15 +3778,15 @@ version = "1.18.0+0" [[deps.libpng_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Zlib_jll"] -git-tree-sha1 = "d7015d2e18a5fd9a4f47de711837e980519781a4" +git-tree-sha1 = "b70c870239dc3d7bc094eb2d6be9b73d27bef280" uuid = "b53b4c65-9356-5827-b1ea-8c7a1a84506f" -version = "1.6.43+1" +version = "1.6.44+0" [[deps.libsixel_jll]] deps = ["Artifacts", "JLLWrappers", "JpegTurbo_jll", "Libdl", "Pkg", "libpng_jll"] -git-tree-sha1 = "d4f63314c8aa1e48cd22aa0c17ed76cd1ae48c3c" +git-tree-sha1 = "7dfa0fd9c783d3d0cc43ea1af53d69ba45c447df" uuid = "075b6546-f08a-558a-be8f-8157d0f608a5" -version = "1.10.3+0" +version = "1.10.3+1" [[deps.libvorbis_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl", "Ogg_jll", "Pkg"] @@ -3491,7 +3809,7 @@ version = "1.1.6+0" [[deps.nghttp2_jll]] deps = ["Artifacts", "Libdl"] uuid = "8e850ede-7688-5339-a07c-302acd2aaf8d" -version = "1.52.0+1" +version = "1.59.0+0" [[deps.oneTBB_jll]] deps = ["Artifacts", "JLLWrappers", "Libdl"] diff --git a/photonics/experiments/calibrate_dm.py b/depr/calibrate_dm.py similarity index 100% rename from photonics/experiments/calibrate_dm.py rename to depr/calibrate_dm.py diff --git a/figures/lantern_modes_19.png b/figures/lantern_modes_19.png index a0e0e0e..e181744 100644 Binary files a/figures/lantern_modes_19.png and b/figures/lantern_modes_19.png differ diff --git a/photonics/experiments/backends.py b/photonics/experiments/backends.py new file mode 100644 index 0000000..1539406 --- /dev/null +++ b/photonics/experiments/backends.py @@ -0,0 +1,85 @@ +# defines "photonic backends" +# i.e. DM-WFS +# the children yearn for the Julia type tree +# actually why don't I just port this whole thing to Julia? DAO has an interface for it... +# because it's too much work to rewrite everything + +from abc import ABC + +class PhotonicBackend(ABC): + """ + - get intensities off an image given that we've got centroids and a radius + - measure darks and PL flats and save them appropriately + - take an interaction matrix and invert it + - make linearity curves + - do a "pseudo-closed-loop" and a real closed loop + """ + def set_centroids(self, centroids, image, save=True): + """ + Sets the centroids of each PL port based on + - an initial guess of each position, in `centroids` + - a reference image, in `image`. + """ + self.xc, self.yc = ports_in_radial_order(refine_centroids(centroids)) + self.yi, self.xi = np.indices(image.shape) + self.masks = [(self.xi - xc) ** 2 + (self.yi - yc) ** 2 <= self.spot_radius_px ** 2 for (xc, yc) in zip(self.xc, self.yc)] + self.centroids_dt = datetime_now() + if save: + new_centroids = np.zeros_like(centroids) + new_centroids[:,0] = self.xc + new_centroids[:,1] = self.yc + with h5py.File(self.filepath(f"centroids_{self.centroids_dt}", ext="hdf5"), "w") as f: + c = f.create_dataset("centroids", data=new_centroids) + c.attrs["spot_radius_px"] = self.spot_radius_px + + def get_intensities(self, img, exclude=[]): + intensities = np.zeros(self.Nports - len(exclude)) + j = 0 + for i in range(self.Nports - len(exclude)): + while j in exclude: + j += 1 + intensities[i] = np.sum(img[self.masks[i]]) + j += 1 + + return normalize(intensities) + + def reconstruct_image(self, img, intensities): + recon_image = np.zeros_like(img) + for (i, intensity) in enumerate(intensities): + recon_image[self.masks[i]] = intensity + + return recon_image + + @property + def directory(self): + return path.join(DATA_PATH, self.subdir) + + def filepath(self, fname, ext=None): + """ + The path we want to save/load data from or to. + """ + if ext is None: + ext = self.ext + return path.join(DATA_PATH, self.subdir, fname + "." + ext) + + def measure_dark(self, direct=True): + if direct: + input("Taking a dark frame, remove the light source!") + darks = [] + for _ in trange(self.nframes): + darks.append(self.im.get_data(check=True).astype(float)) + sleep(self.exp_ms / 1000) + + self.dark = np.mean(darks, axis=0) + self.save(f"dark_exptime_ms_{self.exp_ms}_gain_{self.gain}", self.dark) + + def measure_pl_flat(self): + self.send_zeros(verbose=True) + self.pl_flat = self.get_intensities(self.get_image()) + self.save(f"pl_flat_{datetime_now()}", self.pl_flat) + +class SimBackend(PhotonicBackend): + pass + +class muirSEALBackend(PhotonicBackend): + pass \ No newline at end of file diff --git a/photonics/experiments/lantern_reader.py b/photonics/experiments/lantern_reader.py index 02c454e..399061a 100644 --- a/photonics/experiments/lantern_reader.py +++ b/photonics/experiments/lantern_reader.py @@ -113,29 +113,6 @@ def plot_ports(self, save=False): plt.savefig(self.filepath(f"port_mask_{datetime_now()}", ext="png")) plt.show() - def ports_in_radial_order(self, points): - xnew, ynew = np.zeros_like(points[:,0]), np.zeros_like(points[:,1]) - prev_idx = 0 - radial_shell = np.zeros(len(xnew)) - k = 0 - while len(points) > 0: # should run three times for a 19-port lantern - if len(points) == 1: - v = np.array([0]) - else: - hull = ConvexHull(points) - v = hull.vertices - nhull = len(v) - xtemp, ytemp = points[v][:,0], points[v][:,1] - sortperm = np.argsort(angles_relative_to_center(xtemp, ytemp))[::-1] - xnew[prev_idx:prev_idx+nhull] = xtemp[sortperm] - ynew[prev_idx:prev_idx+nhull] = ytemp[sortperm] - radial_shell[prev_idx:prev_idx+nhull] = k - k += 1 - prev_idx += nhull - points = np.delete(points, v, axis=0) - - return np.flip(xnew), np.flip(ynew), np.flip((k - 1 - radial_shell) / (k - 1)) - def bounding_box(self, pad=0): return (floor(min(self.xc)-pad), ceil(max(self.xc)+pad), floor(min(self.yc)-pad), ceil(max(self.yc)+pad)) diff --git a/photonics/experiments/seal.py b/photonics/experiments/seal.py index 0d3b18f..bd7f74d 100644 --- a/photonics/experiments/seal.py +++ b/photonics/experiments/seal.py @@ -129,7 +129,7 @@ def monitor_stability(plwfs, cam, n=100): return measurements -def (plwfs): +def snr(plwfs): reader = plwfs.reader img = plwfs.cam.get() rp = 2 * (reader.fwhm + 1) diff --git a/photonics/experiments/shane.py b/photonics/experiments/shane.py index 993e6e1..757c8d2 100644 --- a/photonics/experiments/shane.py +++ b/photonics/experiments/shane.py @@ -8,7 +8,8 @@ from tqdm import tqdm, trange import warnings import h5py -from ..utils import date_now, datetime_now, datetime_ms_now, time_ms_now, rms, DATA_PATH, zernike_names + +from ..utils import date_now, datetime_now, datetime_ms_now, time_ms_now, rms, DATA_PATH, zernike_names, center_of_mass def normalize(x): return x / np.sum(x) @@ -64,9 +65,18 @@ def setup_paramiko(self): def destroy_paramiko(self): self.client.close() - - def set_centroids(self, centroids, save=True): - self.centroids = centroids + + def refine_centroids(self, centroids, image, cutout_size=12): + new_centroids = np.zeros_like(centroids) + for i in range(self.Nports): + xl, xu = int(centroids[i,0]) - cutout_size, int(centroids[i,0]) + cutout_size + 1 + yl, yu = int(centroids[i,1]) - cutout_size, int(centroids[i,1]) + cutout_size + 1 + new_centroids[i] = center_of_mass(image[xl:xu, yl:yu], xg[xl:xu, yl:yu], yg[xl:xu, yl:yu]) + + return new_centroids + + def set_centroids(self, centroids, image, save=True): + self.centroids = self.refine_centroids(centroids) self.xc, self.yc = centroids[:,0], centroids[:,1] self.masks = [(self.xi - xc) ** 2 + (self.yi - yc) ** 2 <= self.spot_radius_px ** 2 for (xc, yc) in self.centroids] self.centroids_dt = datetime_now() diff --git a/photonics/utils.py b/photonics/utils.py index c300ac9..19fb5ab 100644 --- a/photonics/utils.py +++ b/photonics/utils.py @@ -4,6 +4,7 @@ from os import path from copy import copy from hcipy import Field, imshow_field +from scipy.spatial import ConvexHull PROJECT_ROOT = path.dirname(path.dirname(path.abspath(__file__))) DATA_PATH = path.join(PROJECT_ROOT, "data") @@ -71,3 +72,42 @@ def norm(a, b): def corr(a, b): return np.abs(norm(a, b)) / np.sqrt(norm(a, a) * norm(b, b)) + +def center_of_mass(img, indices_x, indices_y): + # Returns the center of mass (intensity-weighted sum) in the x and y direction of the image. + xc = np.sum(img * indices_x) / np.sum(img) + yc = np.sum(img * indices_y) / np.sum(img) + return xc, yc + + +def ports_in_radial_order(points): + xnew, ynew = np.zeros_like(points[:,0]), np.zeros_like(points[:,1]) + prev_idx = 0 + radial_shell = np.zeros(len(xnew)) + k = 0 + while len(points) > 0: # should run three times for a 19-port lantern + if len(points) == 1: + v = np.array([0]) + else: + hull = ConvexHull(points) + v = hull.vertices + nhull = len(v) + xtemp, ytemp = points[v][:,0], points[v][:,1] + sortperm = np.argsort(angles_relative_to_center(xtemp, ytemp))[::-1] + xnew[prev_idx:prev_idx+nhull] = xtemp[sortperm] + ynew[prev_idx:prev_idx+nhull] = ytemp[sortperm] + radial_shell[prev_idx:prev_idx+nhull] = k + k += 1 + prev_idx += nhull + points = np.delete(points, v, axis=0) + + return np.flip(xnew), np.flip(ynew) + +def refine_centroids(centroids, image, cutout_size=12): + new_centroids = np.zeros_like(centroids) + for i in range(len(centroids)): + xl, xu = int(centroids[i,0]) - cutout_size, int(centroids[i,0]) + cutout_size + 1 + yl, yu = int(centroids[i,1]) - cutout_size, int(centroids[i,1]) + cutout_size + 1 + new_centroids[i] = center_of_mass(image[xl:xu, yl:yu], xg[xl:xu, yl:yu], yg[xl:xu, yl:yu]) + + return new_centroids \ No newline at end of file diff --git a/scripts_py/analysis/better_centroiding.py b/scripts_py/analysis/better_centroiding.py new file mode 100644 index 0000000..ead21c8 --- /dev/null +++ b/scripts_py/analysis/better_centroiding.py @@ -0,0 +1,69 @@ +# %% +import numpy as np +from matplotlib import pyplot as plt +# %% +# it's hard to test if this is working as is...let's make up a test image + +def hexagon_pattern(nrings, core_offset): + nports = 1 + 3 * nrings * (nrings - 1) + port_positions = np.zeros((nports, 2)) + nports_so_far = 0 + for i in range(nrings): + nports_per_ring = max(1,6*i) + theta = 0 + current_position = i * core_offset * np.array([np.cos(theta), np.sin(theta)]) + next_position = i * core_offset * np.array([np.cos(theta + np.pi / 3), np.sin(theta + np.pi/3)]) + for j in range(nports_per_ring): + if i > 0 and j % i == 0: + theta += np.pi / 3 + current_position = next_position + next_position = i * core_offset * np.array([np.cos(theta + np.pi / 3), np.sin(theta + np.pi / 3)]) + cvx_coeff = 0 if i == 0 else (j % i) / i + port_positions[nports_so_far,:] = (1 - cvx_coeff) * current_position + cvx_coeff * next_position + nports_so_far += 1 + return port_positions +# %% +centroids = 300 + hexagon_pattern(3, 100) +jitter = np.random.normal(0, 5, size=centroids.shape) +centroids += jitter +radii = np.random.uniform(4, 6, size=19) + +reference_image = np.zeros((520,656)) +xg, yg = np.indices((520,656)) + +for ((xc, yc), r) in zip(centroids, radii): + reference_image += np.exp(-((xg - xc)**2 + (yg - yc)**2)/r**2) + +reference_image *= 4032 / np.max(reference_image) +reference_image = np.int64(reference_image) +reference_image += np.random.poisson(reference_image) + +plt.imshow(reference_image, cmap='gray') +plt.show() +# %% +# now let's say I misidentified the centroids +identified_centroids = np.random.normal(centroids, 3) +plt.imshow(reference_image, cmap='gray') +plt.scatter(identified_centroids[:,1], identified_centroids[:,0]) +plt.show() +# %% +def center_of_mass(img, indices_x, indices_y): + # Returns the center of mass (intensity-weighted sum) in the x and y direction of the image. + xc = np.sum(img * indices_x) / np.sum(img) + yc = np.sum(img * indices_y) / np.sum(img) + return xc, yc + +# %% +cutout_size = 12 +new_centroids = np.zeros_like(centroids) +for i in range(19): + xl, xu = int(identified_centroids[i,0]) - cutout_size, int(identified_centroids[i,0]) + cutout_size + 1 + yl, yu = int(identified_centroids[i,1]) - cutout_size, int(identified_centroids[i,1]) + cutout_size + 1 + new_centroids[i] = center_of_mass(reference_image[xl:xu, yl:yu], xg[xl:xu, yl:yu], yg[xl:xu, yl:yu]) + +plt.imshow(reference_image, cmap='gray') +plt.scatter(new_centroids[:,1], new_centroids[:,0], s=1) +# %% +print(float(np.std(identified_centroids - centroids))) +print(float(np.std(new_centroids - centroids))) +# %% diff --git a/scripts_py/analysis/pl_241119_findspiral.py b/scripts_py/analysis/pl_241119_findspiral.py new file mode 100644 index 0000000..841f4f2 --- /dev/null +++ b/scripts_py/analysis/pl_241119_findspiral.py @@ -0,0 +1,55 @@ +# %% +import numpy as np +from matplotlib import pyplot as plt +import h5py +from tqdm import trange +from photonics.experiments.shane import ShaneLantern +# %% +with h5py.File("../../data/pl_241119/centroids_2024-11-19T18.19.22.185917.hdf5") as f: + centroids = np.array(f["centroids"]) +# %% +lant = ShaneLantern() +lant.set_centroids(centroids) + +# %% +spiral_search_runs = [ + # "stability_2024-11-19T18.35.31.751850.hdf5", + """ "stability_2024-11-19T18.49.20.552640.hdf5", + "stability_2024-11-19T18.52.19.198809.hdf5", + "stability_2024-11-19T18.52.28.898958.hdf5", + "stability_2024-11-19T18.53.36.906790.hdf5", + "stability_2024-11-19T18.53.46.656923.hdf5", + "stability_2024-11-19T18.54.44.361814.hdf5", + "stability_2024-11-19T18.57.36.228830.hdf5", + "stability_2024-11-19T19.02.49.030057.hdf5", + "stability_2024-11-19T19.06.03.842302.hdf5", + "stability_2024-11-19T19.08.08.360465.hdf5", + "stability_2024-11-19T19.13.02.699090.hdf5",""" +# %% +spiral_search_runs = [ + "stability_2024-11-19T21.08.09.370403.hdf5" +] +# %% +with h5py.File(f"../../data/pl_241119/stability_2024-11-19T18.35.31.751850.hdf5") as f: + ref_image = np.array(f["pl_images"][0]) / 2 +# %% +for x in spiral_search_runs: + with h5py.File(f"../../data/pl_241119/{x}") as f: + exp_ms = f["pl_intensities"].attrs["exp_ms"] + ref_image_conversion = exp_ms / 500 + images = np.array(f["pl_images"]) + import matplotlib.animation as animation + + fig, ax = plt.subplots() + im = ax.imshow(ref_image * ref_image_conversion, cmap='viridis') + + def update(frame): + im.set_array((images[frame, :, :] - ref_image * ref_image_conversion)) + # (np.sum(lant.masks, axis=0) + return [im] + + ani = animation.FuncAnimation(fig, update, frames=len(images), blit=True) + ani.save(f'animation_{x}.mp4', writer='ffmpeg') + plt.show() + plt.plot(np.array([lant.get_intensities(img - ref_image * ref_image_conversion) for img in images])) +# %% diff --git a/scripts_py/analysis/pl_241119_stability.py b/scripts_py/analysis/pl_241119_stability.py new file mode 100644 index 0000000..b9ef30c --- /dev/null +++ b/scripts_py/analysis/pl_241119_stability.py @@ -0,0 +1,92 @@ +# %% +import numpy as np +from matplotlib import pyplot as plt +import h5py +from photonics.experiments.shane import ShaneLantern +# %% +with h5py.File("../../data/pl_241119/stability_2024-11-19T21.45.55.624215.hdf5") as f: + images = np.array(f["pl_images"]) + intensities = np.array(f["pl_intensities"]) + print(f["pl_intensities"].attrs["centroids_dt"]) + +# %% +with h5py.File("../../data/pl_241119/centroids_2024-11-19T20.57.43.810016.hdf5") as f: + centroids = np.array(f["centroids"]) + +# %% +lant = ShaneLantern() +lant.spot_radius_px = 6 +lant.set_centroids(centroids) +plt.plot([lant.get_intensities(images[x]) for x in range(20)]); +# %% +# let's come up with a better centroiding algorithm +# we have approx locations in `centroids`, and a candidate image in `images[0]` +def center_of_mass(img, x_offset, y_offset): + # Returns the center of mass (intensity-weighted sum) in the x and y direction of the image. + total = np.sum(img) + X, Y = np.indices(img.shape) + x_center = np.sum(X * img) / total + y_center = np.sum(Y * img) / total + return x_center + x_offset, y_center + y_offset + +cutout_size = 15 +new_centroids = np.array([center_of_mass(reference_image[int(yc)-cutout_size:int(yc)+cutout_size, int(xc)-cutout_size:int(xc)+cutout_size], int(xc)-cutout_size, int(yc)-cutout_size) for (xc, yc) in identified_centroids]) + +for (xc, yc) in identified_centroids: + plt.imshow(reference_image[int(xc)-cutout_size:int(xc)+cutout_size,int(yc)-cutout_size:int(yc)+cutout_size]) + plt.show() +# %% +plt.scatter(centroids[:,0], centroids[:,1]) +plt.scatter(identified_centroids[:,0], identified_centroids[:,1]) +plt.scatter(new_centroids[:,0], new_centroids[:,1]) +# %% +# it's hard to test if this is working as is...let's make up a test image + +def hexagon_pattern(nrings, core_offset): + nports = 1 + 3 * nrings * (nrings - 1) + port_positions = np.zeros((nports, 2)) + nports_so_far = 0 + for i in range(nrings): + nports_per_ring = max(1,6*i) + theta = 0 + current_position = i * core_offset * np.array([np.cos(theta), np.sin(theta)]) + next_position = i * core_offset * np.array([np.cos(theta + np.pi / 3), np.sin(theta + np.pi/3)]) + for j in range(nports_per_ring): + if i > 0 and j % i == 0: + theta += np.pi / 3 + current_position = next_position + next_position = i * core_offset * np.array([np.cos(theta + np.pi / 3), np.sin(theta + np.pi / 3)]) + cvx_coeff = 0 if i == 0 else (j % i) / i + port_positions[nports_so_far,:] = (1 - cvx_coeff) * current_position + cvx_coeff * next_position + nports_so_far += 1 + return port_positions +# %% +centroids = 300 + hexagon_pattern(3, 100) +jitter = np.random.normal(0, 5, size=centroids.shape) +centroids += jitter +radii = np.random.uniform(4, 6, size=19) + +reference_image = np.zeros_like(images[0]) +xg, yg = np.indices(images[0].shape) + +for ((xc, yc), r) in zip(centroids, radii): + reference_image += np.exp(-((xg - xc)**2 + (yg - yc)**2)/r**2) + +reference_image *= 4032 / np.max(reference_image) +reference_image = np.int64(reference_image) +reference_image += np.random.poisson(reference_image) + +plt.imshow(reference_image, cmap='gray') +plt.show() +# %% +# now let's say I misidentified the centroids +identified_centroids = np.random.normal(centroids, 3) +plt.imshow(reference_image, cmap='gray') +plt.scatter(identified_centroids[:,1], identified_centroids[:,0]) +plt.show() +# %% +cutout_size = 5 +new_centroids = np.array([center_of_mass(images[0][int(yc)-cutout_size:int(yc)+cutout_size, int(xc)-cutout_size:int(xc)+cutout_size], int(xc)-cutout_size, int(yc)-cutout_size) for (xc, yc) in identified_centroids]) +plt.imshow(reference_image, cmap='gray') +plt.scatter(new_centroids[:,1], new_centroids[:,0]) +# %% diff --git a/scripts_py/muirseal/pl_241204_sweeps.py b/scripts_py/muirseal/pl_241204_sweeps.py new file mode 100644 index 0000000..2ffb255 --- /dev/null +++ b/scripts_py/muirseal/pl_241204_sweeps.py @@ -0,0 +1,13 @@ +# %% +import numpy as np +from matplotlib import pyplot as plt +# %% +piston_all = np.load("../../data/pl_241204/piston_all_images.npy") +# %% +for i in range(sweep_all.shape[2]): + plt.imshow(sweep_all[:,:,i]) + plt.show() +# %% +sweep_all = np.load("../../data/pl_241204/zernike_sweep_images.npy") + +# %% diff --git a/scripts_py/onsky/more_paramiko.py b/scripts_py/onsky/more_paramiko.py index bec8af8..8a2e36c 100644 --- a/scripts_py/onsky/more_paramiko.py +++ b/scripts_py/onsky/more_paramiko.py @@ -12,7 +12,7 @@ client.set_missing_host_key_policy(paramiko.AutoAddPolicy()) client.connect(host, username=username, password=password) # %% -_stdin, _stdout,_stderr = client.exec_command("/home/user/ShaneAO/shade/imageSharpen_nogui -s 0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0") +# _stdin, _stdout,_stderr = client.exec_command("/home/user/ShaneAO/shade/imageSharpen_nogui -s 0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0") print(_stdout.read().decode()) # %% client.close() diff --git a/scripts_py/onsky/paramiko_stresstest.py b/scripts_py/onsky/paramiko_stresstest.py new file mode 100644 index 0000000..a4ae6ff --- /dev/null +++ b/scripts_py/onsky/paramiko_stresstest.py @@ -0,0 +1,22 @@ +# %% +import paramiko +from time import sleep + +# Update the next three lines with your +# server's information + +host = "karnak.ucolick.org" +username = "user" +password = "yam != spud" + +client = paramiko.client.SSHClient() +client.set_missing_host_key_policy(paramiko.AutoAddPolicy()) +client.connect(host, username=username, password=password) +client.get_transport().set_keepalive(60) # send an empty packet to keep the connection alive every 60 seconds; hopefully this fixes my crash issue +# %% +for _ in range(1000): + _stdin, _stdout,_stderr = client.exec_command("date") + sleep(1) +# %% +client.close() +# %%